Sandbox Reserved 426
| This Sandbox is Reserved from January 19, 2016, through August 31, 2016 for use for Proteopedia Team Projects by the class Chemistry 423 Biochemistry for Chemists taught by Lynmarie K Thompson at University of Massachusetts Amherst, USA. This reservation includes Sandbox Reserved 425 through Sandbox Reserved 439. |
Structure of Oligonucleotide/Drug complex (1xcs)[1]Structure of Oligonucleotide/Drug complex (1xcs)[1]
by Michael Beauregard, Annie Burton, Jianlong Li, Daniel Marco, and Nathaneal Park
Student Projects for UMass Chemistry 423 Spring 2016
IntroductionIntroduction
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Notice the similarity in shape and side chains.
Everyone -- note that this is NOT a protein, but a complex with DNA. Edit your text accordingly, eg discussing alpha helices etc does not make sense.
Overall StructureOverall Structure
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The 1xcs (model at right) complex is a small, simple globular DNA-peptide complex, and as such lacks secondary beta sheets or alpha helices. The complex consists of two non-identical dimers. A simplified model of 1xcs is shown with the side chains removed for clarity. The peptide backbones can be followed from N to C termini following along each strand from blue to red. Note that the strands are antiparallel where they are non-covalently bound. visualizes this bonding in the middle region of the complex, again following each strand from blue to red from N to C terminus.
Binding InteractionsBinding Interactions
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Additional FeaturesAdditional Features
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Click to see that the drug binds directly between strands of DNA. This interrupts the expression of this section of DNA.
I will then go on to explain how specifically this complex interrupts/changes gene expression.
Quiz Question 1Quiz Question 1
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Why is it important for the protein to bind ?
A unique site is the __ ion found associated with the , which gives additional strength to the guanine–Co2+–guanine interaction. A Mg2+ B Co2+ C Ba2+ D Mg2+
See AlsoSee Also
CreditsCredits
Introduction - Daniel Marco
Overall Structure - Nathaneal Park
Drug Binding Site - Annie Burton
Additional Features - Michael Beauregard
Quiz Question 1 - Jianlong Li
ReferencesReferences
- ↑ Valls N, Steiner RA, Wright G, Murshudov GN, Subirana JA. Variable role of ions in two drug intercalation complexes of DNA. J Biol Inorg Chem. 2005 Aug;10(5):476-82. Epub 2005 Sep 23. PMID:15926069 doi:10.1007/s00775-005-0655-3