Professor Juli Feigon; email: feigon@mbi.ucla.edu
office: 256 MBI
phone: x66922
If you have any questions about CHIME and this tutorial please email cascio@mbi.ucla.edu
If you plan to run this tutorial using your home or lab computer to view the molecules. then,
you must install in your PC
CHIME for PC,and RASMOL for PC
If you have a Mac, install Chime for MAC, and
RASMOL for MAC-PPC.
You must have a Netscape version 4.7 or Internet explorer 5.5.
(DO NOT USE NETSCAPE 6.0 or INTERNET EXPLORER 6.0).
A-DNA (Sundaralingam, PDB-CODE=213D )DNA Structure
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General References: |
Principles of Nucleic Acid Structure, W. Saenger (Springer-Verlag, New York, 1984) |
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DNA Structure and Function, R. R. Sinden (Academic Press, 1994) |
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Oxford Handbook of Nucleic Acid Structure, ed. S. Neidle (Oxford University Press, New York, 1999) |
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Any undergraduate Biochemistry text |
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Lecture 1: The A, B, Z’s of Nucleic Acid Structure |
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1 |
R.E. Dickerson: "The DNA helix and how it is read", Sci. Amer. 249, 94-111 (1983) |
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(this is a nice review, although not up to date) |
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Lecture 2: Triplexes, Quadruplexes, and Bending |
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2. |
O. N. Voloshin, S. M. Mirkin, V. I. Lyamichev, B. P. Belotserkovskii, and M. D. Frank-Kamenetskii: "Chemical probing of homopurine-homopyrimidine mirror repeats in supercoiled DNA", Nature 333, 475-476 (1988) |
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3. |
J.R. Williamson, M. K. Raghuraman, and T. R.Cech: "Monovalent cation-induced structure of telomeric DNA: the G-quartet model", Cell 59, 871-880 (1989) |
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4. |
H.-S. Koo, H.-M. Wu, D. M. Crothers: "DNA bending at adenine-thymine tracts", Nature 320, 501-506 (1986) |
RNA Structure
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General References: |
The RNA World, R.F. Gesteland, and J.F. Atkins (Cold Spring Harbor Laboratory Press, 1993) |
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particularly Chapters 4, 17, 18, 19, 20, and Appendices 1,2,3 |
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The RNA World, 2nd Edition, R.F. Gesteland, Thomas Cech, and J.F. Atkins (Cold Spring Harbor Laboratory Press, 1999) |
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Lecture 3: RNA Folding Motifs, in vivo and in vitro Genetics |
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5. |
M. Sassanfar and J. W. Szostak: "An RNA motif that binds ATP", Nature 364, 550-553 (1993). |
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Lecture 4: The Big Picture |
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6. |
J. H. Cate, A. R. Gooding, E. Podell, K. Zhou, B. L. Golden, C. E. Kundrot, and T.R. Cech, and J. A. Doudna: "Crystal structure of a group I ribozyme domain: principles of RNA packing" Science 273, 1678-1685 (1996). http://www.ncbi.nlm.nih.gov/cgi-bin/Entrez/referer?/htbin-post/Entrez/query%3fdb=m&form=6&uid=8781224&Dopt=r |