Sandbox Reserved 430: Difference between revisions

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===Overall Structure===

The original view shows a double stranded DNA helix and the cisplatin ligand. This molecule is in its <scene name='Sandbox_Reserved_430/Z-dna_form_due_to_cisplatin/1'>A-DNA conformation due to Cisplatin</scene> which means it stll has the right handed helix, but the widened minor groove distorts its structure and loses its major curve. To prove this, the jmol to the right shows the distance between intrastrand phosphate groups has been changed sue to the insertion of the Cisplatin. Based on the chart found in ([[Forms of DNA]]), the distance should changed from 7 [Å] to 5.9 [Å]. It is much more rare than the common B-DNA[2]<scene name='Sandbox_Reserved_430/Intra-strand_phosphate/1'>Intra-strand Phosphate</scene>. "In Z-DNA only a minor groove is present".[2] <scene name='Sandbox_Reserved_430/Cisplatin_ligand/1'>Platination bond d(GpG)</scene>. The cisplatin ligand is a cis-diammineplatinum molecule, which is a platinum atom attached to two N7 nitrogen atoms, each apart of a guanine bases, and two NH3 molecules attached to the other side. They attach to the 6 and 7 guanine bases which links the two bases together and alters the bend in the helix by 49 degrees. The guanine still pair with the 18 and 19 cytosine bases.

The original view shows a double stranded DNA helix and the cisplatin ligand. This molecule is in its <scene name='Sandbox_Reserved_430/Z-dna_form_due_to_cisplatin/1'>A-DNA conformation due to Cisplatin</scene> which means it stll has the right handed helix, but the widened minor groove distorts its structure and loses its major curve. To prove this, the jmol to the right shows the distance between intrastrand phosphate groups has been changed sue to the insertion of the Cisplatin. Based on the chart found in ([[Forms of DNA]]), the distance should changed from 7 [Å] to 5.9 [Å]. It is much more rare than the common B-DNA[2]<scene name='Sandbox_Reserved_430/Intra-strand_phosphate/1'>Intra-strand Phosphate</scene> [3]. "In Z-DNA only a minor groove is present".[2] <scene name='Sandbox_Reserved_430/Cisplatin_ligand/1'>Platination bond d(GpG)</scene>. The cisplatin ligand is a cis-diammineplatinum molecule, which is a platinum atom attached to two N7 nitrogen atoms, each apart of a guanine bases, and two NH3 molecules attached to the other side. They attach to the 6 and 7 guanine bases which links the two bases together and alters the bend in the helix by 49 degrees. The guanine still pair with the 18 and 19 cytosine bases.

Good start. Suggestions:

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2.↑ 2.0 Rich A, Zhang S. Timeline: Z-DNA: the long road to biological function. Nat Rev Genet. 2003 Jul;4(7):566-72. PMID:12838348 doi:10.1038/nrg1115

3. Takahara, P. M., Rosenzweig, A. C., Frederick, C. A., and Lippard, S. J. (1995) Nature 377, 649-652. Takahara, P. M., Frederick, C. A., and Lippard, S. J. (1996) J. Am. Chem. Soc 118, 12309-12321.

Sandbox Reserved 430: Difference between revisions

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@@ Line 26: / Line 26: @@
 ===Overall Structure===
 <Structure load='1a84' size='500' frame='true' align='right' caption='This conformation shown above has the widening and flattening of the minor groove of the DNA molecule which resembles A-DNA not found in B DNA. This change is due to the guanine bases that cisplatin interacts with. They compact the major groove and unwind the DNA.' scene='Sandbox_Reserved_430/Z-dna_form_due_to_cisplatin/1' />
-The original view shows a double stranded DNA helix and the cisplatin ligand. This molecule is in its <scene name='Sandbox_Reserved_430/Z-dna_form_due_to_cisplatin/1'>A-DNA conformation due to Cisplatin</scene> which means it stll has the right handed helix, but the widened minor groove distorts its structure and loses its major curve. To prove this, the jmol to the right shows the distance between intrastrand phosphate groups has been changed sue to the insertion of the Cisplatin. Based on the chart found in <font color='purple'>([[Forms of DNA]])</font>, the distance should changed from 7 [Å] to 5.9 [Å]. It is much more rare than the common B-DNA[2]<scene name='Sandbox_Reserved_430/Intra-strand_phosphate/1'>Intra-strand Phosphate</scene>. "In Z-DNA only a minor groove is present".[2] <scene name='Sandbox_Reserved_430/Cisplatin_ligand/1'>Platination bond d(GpG)</scene>. The cisplatin ligand is a cis-diammineplatinum molecule, which is a platinum atom attached to two N7 nitrogen atoms, each apart of a <font color='blue'>guanine bases</font>, and two NH3 molecules attached to the other side. They attach to the 6 and 7 <font color='blue'>guanine bases</font> which links the two bases together and alters the bend in the helix by 49 degrees. The guanine still pair with the 18 and 19 <font color='red'>cytosine bases.</font>
+The original view shows a double stranded DNA helix and the cisplatin ligand. This molecule is in its <scene name='Sandbox_Reserved_430/Z-dna_form_due_to_cisplatin/1'>A-DNA conformation due to Cisplatin</scene> which means it stll has the right handed helix, but the widened minor groove distorts its structure and loses its major curve. To prove this, the jmol to the right shows the distance between intrastrand phosphate groups has been changed sue to the insertion of the Cisplatin. Based on the chart found in <font color='purple'>([[Forms of DNA]])</font>, the distance should changed from 7 [Å] to 5.9 [Å]. It is much more rare than the common B-DNA[2]<scene name='Sandbox_Reserved_430/Intra-strand_phosphate/1'>Intra-strand Phosphate</scene> [3]. "In Z-DNA only a minor groove is present".[2] <scene name='Sandbox_Reserved_430/Cisplatin_ligand/1'>Platination bond d(GpG)</scene>. The cisplatin ligand is a cis-diammineplatinum molecule, which is a platinum atom attached to two N7 nitrogen atoms, each apart of a <font color='blue'>guanine bases</font>, and two NH3 molecules attached to the other side. They attach to the 6 and 7 <font color='blue'>guanine bases</font> which links the two bases together and alters the bend in the helix by 49 degrees. The guanine still pair with the 18 and 19 <font color='red'>cytosine bases.</font>
 <font color='red'>Good start. Suggestions:
@@ Line 133: / Line 133: @@
 .↑ 2.0 Rich A, Zhang S. Timeline: Z-DNA: the long road to biological function. Nat Rev Genet. 2003 Jul;4(7):566-72. PMID:12838348 doi:10.1038/nrg1115
+. Takahara, P. M., Rosenzweig, A. C., Frederick, C. A., and Lippard, S. J. (1995) Nature 377, 649-652. Takahara, P. M., Frederick, C. A., and Lippard, S. J. (1996) J. Am. Chem. Soc 118, 12309-12321.