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Digital-World-Biology

Exploring DNA Binding with the Molecule World DNA Binding Lab. www.Digital-World-Biology.com. Explore the properties of the example DNA. Identify major & minor grooves Identify elements Does DNA have a positive or negative charge? Is DNA hydrophobic or hydrophilic?

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Digital-World-Biology

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  1. Exploring DNA Binding with the Molecule World DNA Binding Lab www.Digital-World-Biology.com

  2. Explore the properties of the example DNA • Identify major & minor grooves • Identify elements • Does DNA have a positive or negative charge? • Is DNA hydrophobic or hydrophilic? • How many distinct molecules are in DNA? www.Digital-World-Biology.com

  3. Move & resize the DNA to find the major and minor grooves Drag to rotate Pinch & spread fingers apart to zoom in and out www.Digital-World-Biology.com

  4. Identify the elements in DNA Tap the palette to view the color key www.Digital-World-Biology.com

  5. Identify the elements in DNA www.Digital-World-Biology.com

  6. Does DNA have a positive or negative charge? Tap the atom icon to see drawing & coloring options www.Digital-World-Biology.com

  7. Does DNA have a positive or negative charge? 1. Tap charge 2. Touch the window to apply the change www.Digital-World-Biology.com

  8. Does DNA have a positive or negative charge? Tap the palette to view the color key www.Digital-World-Biology.com

  9. Is DNA hydrophilic or hydrophobic? 1. Tap Hydrophobicity 2. Touch the window to apply the change www.Digital-World-Biology.com

  10. Is DNA hydrophilic or hydrophobic? Tap the palette to view the color key www.Digital-World-Biology.com

  11. How many distinct molecules are in DNA? 1. Tap Molecule 2. Touch the window to apply the change www.Digital-World-Biology.com

  12. How many distinct molecules are in DNA? www.Digital-World-Biology.com

  13. How many different bases are in this DNA fragment? 1. Tap Tubes 2. Tap Residue 3. Touch the window www.Digital-World-Biology.com

  14. How many different bases are in this DNA fragment? Each base has a different color. Count the bases to find the number of residues in each chain. www.Digital-World-Biology.com

  15. Why study how molecules interact with DNA? • All genetic information is stored in DNA • Proteins bind to DNA to use information • Proteins bind DNA to copy it • Proteins bind DNA to repair it • Proteins that bind DNA are used in biotechnology • Restriction enzymes cut DNA • DNA polymerases copy DNA (PCR) • Some drugs bind to DNA & block replication • Anti-cancer drugs – tamoxifen for breast cancer • Anti-viral drugs – valacyclovir www.Digital-World-Biology.com

  16. What do we know about molecules that bind DNA? • Proteins or drugs often bind to specific regions in DNA • Some bind to the major groove • Some bind in the minor groove • Some contact both the major and minor groove • Some proteins and / or drugs bind to specific DNA sequences • Restriction enzymes • Transcription factors www.Digital-World-Biology.com

  17. How can we determine if a substance is binding to the major groove, or minor groove, or both? www.Digital-World-Biology.com

  18. Answer: use different coloring and drawing styles to look at the two examples and see which visualization options show binding most clearly. Example major groove binding Example minor groove binding www.Digital-World-Biology.com

  19. How can we tell if the substance bound to DNA is a protein or another kind of chemical, like a drug or something else? • Answer: use residue coloring and the color key to see which objects don’t contain amino acid residues. Example major groove binding Example minor groove binding www.Digital-World-Biology.com

  20. Assessment Tap the camera icon Students can send an image in an email or save an image to the photo library, paste it into a document and write about it. www.Digital-World-Biology.com

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