Sandbox1234: Difference between revisions
No edit summary |
No edit summary |
||
| Line 4: | Line 4: | ||
The shown representation is a DNA:RAN hybrid duplex. This is the | The shown representation is a DNA:RAN hybrid duplex. This is the | ||
<scene name='Sandbox1234/Dna/1'>DNA</scene> in orange and this is the <scene name='Sandbox1234/Rna/1'>RNA</scene> in green. We can choose to see the base pairs, which show very neatly. First, the G-C pairs: <scene name='Sandbox1234/Dg-c/1'>dG-C</scene> are in blue and dC-G are in yellow. Similarly, we can see the dA-U in red and the dT-A in purple (note that the RNA has U nucleotides instead of T). Furthermore, we can also see the purine and pyrimidine for a more general view of the bases. Because this is the B form of DNA:RNA interaction, all hydrogen bonds between the bases are through the Watson Crick faces. If we choose to see the ions, as we'd expect, the whole complex shines. | <scene name='Sandbox1234/Dna/1'>DNA</scene> in orange and this is the <scene name='Sandbox1234/Rna/1'>RNA</scene> in green. Notice that all hydrogen bonds between the bases are linear. We can choose to see the base pairs, which show very neatly. First, the G-C pairs: <scene name='Sandbox1234/Dg-c/1'>dG-C</scene> are in blue and dC-G are in yellow. Similarly, we can see the dA-U in red and the dT-A in purple (note that the RNA has U nucleotides instead of T). Furthermore, we can also see the purine and pyrimidine for a more general view of the bases. Because this is the B form of DNA:RNA interaction, all hydrogen bonds between the bases are through the Watson Crick faces. If we choose to see the ions, as we'd expect, the whole complex shines. | ||
===Reference=== | ===Reference=== | ||
http://www.rcsb.org/pdb/explore.do?structureId=124d | http://www.rcsb.org/pdb/explore.do?structureId=124d | ||
Latest revision as of 13:57, 23 May 2009
This sandbox is in use until June 1, 2009 for UMass Chemistry 490a. Others please do not edit this page. Thanks!
DNA:RNA interactions
| |||||||||||||
| 124d, 1 NMR models (default scene) | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||||||||
The shown representation is a DNA:RAN hybrid duplex. This is the
DNA in orange and this is the RNA in green. Notice that all hydrogen bonds between the bases are linear. We can choose to see the base pairs, which show very neatly. First, the G-C pairs: dG-C are in blue and dC-G are in yellow. Similarly, we can see the dA-U in red and the dT-A in purple (note that the RNA has U nucleotides instead of T). Furthermore, we can also see the purine and pyrimidine for a more general view of the bases. Because this is the B form of DNA:RNA interaction, all hydrogen bonds between the bases are through the Watson Crick faces. If we choose to see the ions, as we'd expect, the whole complex shines.
