MCB/Bch 642 Fall 2000

Craig Martin 1436 LGRT X5-3299 CMartin@Chem.UMass.edu

Problem 1 Answer Key available here.

Beforeo the lecture/discussion on Sept 15, please:

Read Chapters 2 and 9 of the text by Weaver

Go through Freida Reichsman's tutorial on DNA and her presentation on DNA Binding Motifs

Then proceed to DNA Tutor

Finally, Prof Martin's lecture notes are available for download.

Explore some of the nucleic acid structures below

The WEB sites below include interactive analyses of various forms of DNA and of various protein-DNA interactions. Explore!!

Sites of Interest

*** These sites requires the CHIME plug-in installed in your Netscape Navigator 4.x browser. Click here to find out how to install this free software onto your computer.

Nucleic Acid Basics
- DNA Tutor
- A, B, Z DNA Comparison
- B Form
- A Form -> compared with B
- Z Form -> compared with B
- PNA -> compared with B
- Compare sugar pucker
- DNA dinucleotide steps
Nucleic acids with tertiary structure
Protein-nucleic acid complexes
- Engrailed Homeodomain protein (see also a static picture, another, and another)
- IHF protein
- Ribosome!
General Sites
- General Science
- Macromolecular Modeling
- Rasmol/CHIME > Commands
- Swiss-PDB Viewer
- Namot - nucleic acid modeling software for Unix boxes only
- Atlas of Nucleic Acid Structures