PRESENTATION TOPICS

G25.1815

MACROMOLECULAR STRUCTURE

FALL 1999

INSTRUCTIONS FOR PRESENTATIONS:

[1] EVERYBODY WILL HAVE A TOTAL OF 25 MINUTES. PLEASE COME TO CLASS AS EARLY AS POSSIBLE, BECAUSE IF EVERYONE IS THERE WE CAN START. WE WILL START WHEN EVERYONE IS THERE, OR 2:50 (2:15 ON DEC 9), WHICHEVER COMES FIRST.

[2] PLAN TO SPEND NO MORE THAN 20 MINUTES ON YOUR TALK. THE REST OF THE TIME IS FOR DISCUSSION. I WILL CUT YOU OFF AFTER 20 MINUTES. YOU ARE RESPONSIBLE FOR PRESENTING EVERY PAPER IN YOUR ASSIGNMENT.

[3] YOU SHOULD USE OVERHEADS TO ILLUSTRATE THE IMPORTANT FIGURES AND POINTS IN THE PAPER. THESE SHOULD BE DERIVED FROM THE ORIGINAL PUBLICATION, NOT FROM THE REDUCED B&W XEROX IN THE LIBRARY. IF FIGURES ARE IN COLOR IN THE ORIGINAL, YOUR OVERHEADS SHOULD BE IN COLOR, AS WELL. START LOOKING FOR YOUR ARTICLES NOW. IF THEY ARE HARD TO FIND, TELL ME. IF YOU START MAKING YOUR OVERHEADS THE NIGHT BEFORE YOUR TALK, YOU MAY HAVE ONLY GARBAGE TO SHOW. POINT ON THE SCREEN, NOT ON THE PROJECTOR.

[4] EVERYBODY IS RESPONSIBLE FOR EVERY PAPER. THAT IS WHY WE HAVE 5 MINUTES OF DISCUSSION SCHEDULED. YOU WILL BE GRADED ON YOUR DISCUSSION PARTICIPATION. EVERYBODY STARTS WITH A DISCUSSION GRADE OF 'C', A FAILING GRADE FOR A GRADUATE STUDENT. HOWEVER, IF YOU ASK A DUMB QUESTION, INDICATING THAT YOU HAVE NOT READ THE ARTICLE, YOU WILL GET A GRADE BELOW 'C'. GOOD QUESTIONS DO NOT REPEAT WHAT THE SPEAKER JUST SAID, BUT INVOLVE CLARIFICATION OF POINTS RAISED. IF I AM UNSATISFIED WITH THE QUALITY OF DISCUSSION, I WILL GIVE A FINAL EXAM ON THE CONTENT OF THE PAPERS. OTHERWISE I WON'T.

[5] PRACTICE YOUR TALK AT LEAST 30 TIMES!!!

(1) TUESDAY, DECEMBER 07

UNUSUAL NUCLEIC ACID BACKBONES

Frederic Mathieu

  1. Lohse, J., Dahl, O. & Neilsen, P.E., Double duplex invasion by peptide nucleic acid: A general principle for sequence-specific targeting of double-stranded DNA, Proc. Nat. Acad. Sci. (USA) 96, 11804-11813 (1999).

2. Neilsen, C.B., Singh, S.K., Wengel, J. & Jacobsen, J.P., The solution structure of a locked nucleic acid (LNA) hybridized to DNA, J. Biomol. Struct. & Dyns. 17, 175-191 (1999).

 

(2) TUESDAY, DECEMBER 07

SEQUENCE-SPECIFIC DNA LIGANDS

Qing Zhang

1. Herman, D.M., Turner, J.M., Baird, E.E. & Dervan, P.B., Cycle polyamide motif for recognition of the minor groove of DNA, J. Am. Chem. Soc. 121, 1121-1129 (1999).

2. Pilch, D.S., Poklar, N., Baird, E.E., Dervan, P.B. & Breslauer, K.J., The thermodynamics of polyamide-DNA recognition: Hairpin polyamide binding in the minor groove of duplex DNA, Bioichemistry 38, 2143-2151 (1999).

 

(3) TUESDAY, DECEMBER 07

CLATHRIN ASSEMBLIES

Pamela Constantinou

1. Ybe, J.A., Brodsky, F.M., Hofmann, K., Lin, K., Liu, S.-H., Chen, L, Earnest, T.N., Fletterick, R.J. & Hwang, P.K., Clathrin self-assembly is mediated by a tandemly repeated superhelix, Nature 399, 371-375 (1999).

2. Musacchio, A., Smith, C.J., Roseman, A.M., Harrison, S.C., Kirchhausen, T. & Pearse, B.M.F., Functional organization of clathrin in coats: Combining electron cryomicroscopy and X-ray Crystallography, Mol. Cell 3, 761-770 (1999).

 

(4) THURSDAY, DECEMBER 09

DNA UNPAIRED STRUCTURES

Jie Guo

1. Anderson, A.C., O'Neil, R.H., Filman, D.J. & Frederick, C.A., Crystal structure of a brominated RNA helix with four mismatched base pairs: An investigation into RNA conformational Variability, Biochemistry 38, 12577-12585 (1999).

2. Dornberger, U., Hillisch, A., Gollmick, F.A., Fritzsche, H. & Diekmann, S., Solution structure of a five-adenine bulge loop within a DNA duplex, Biochemistry 38, 12860-12868 (1999).

 

(5) THURSDAY, DECEMBER 09

DNA UNPAIRING BY PROTEINS

Rebecca Perlow

1. Velankar, S.S., Soultanas, P., Dillingham, M.S., Subramanya, H.S. & Wigley, D.B., Crystal structures of complexes of PCRA DNA helicase with an inchworm mechanism, Cell 97, 75-84 (1999).

2. Lau, A.Y., Schärer, O.D., Samson, L., Verdine, G.L. & Ellenberger, T., Crystal structure of a human alkylbase-DNA repair enzyme complexed to DNA: Mechanisms for nucleotide flipping and base excision, Cell 95, 249-256 (1998).

 

(6) THURSDAY, DECEMBER 09

DNA JUNCTION CRYSTALLOGRAPHY

Shiping Liao

1. Ortiz-Lombardia, M., Gonzalez, A., Eritja, R., Aymami, J., Azorin, F. & Coll, M, Crystal structure of a DNA Holliday junction, Nature Str. Biol. 6, 913-917 (1999).

2. Nowakowski, J., Shim, P.J., Prasad, G.S., Stout, C.D. & Joyce, G.F., Crystal structure ofn an 82-nucleotide RNA-DNA complex formed by the 10-23 DNA enzyme, Nature Str. Biol. 6, 151-156 (1999.

(7) THURSDAY, DECEMBER 09

PROTEIN ENGINEERING

Jie Lu

1. Liu, D.R. & Schultz, P.G., Progress toward the evolution of an organism with an expanded genetic code, Proc. Nat. Acad. Sci. (USA) 96, 4780-4785 (1999).

2. Gibney, B.R., Rabanal, F., Skalicky, J.J., Wand, A.J. & Dutton, P.L., Iterative protein redesign, J. Am. Chem. Soc. 121, 4952-4960 (1999).