YaleGerstein Lab


Publications

Lists of Papers: Main Scientific Ones (XML dump) / Before 1997 (XML) / Showing tags, IDs / Linked to Research Program

E-pre-print Directory, with full-text of some papers in press (help on this)

Medline Queries: Gerstein M's papers, Same with no restriction

Experimental Lists: Condensed list (to '98) / XML parser working directory (with code) help with papers format and links to scripts / Just Text with URLs and Best (old)

Publications Before 1997

(28 in total before opening of lab in January 1997. Last Modified on Thursday, 03-Jul-2008 11:53:11 EDT)

-- 1996 - 3 --

M Gerstein & M Levitt (1996). "Using Iterative Dynamic Programming to Obtain Accurate Pairwise and Multiple Alignments of Protein Structures," in Proceedings of the Fourth International Conference on Intelligent Systems in Molecular Biology, 59-67 (Menlo Park, CA, AAAI Press, June 12-15).
       

J Tsai, M Gerstein & M Levitt (1996). "Keeping the Shape but Changing the Charges: A Simulation Study of Urea and its Isosteric Analogues," Journal of Chemical Physics 104: 9417-9430.
       

M Gerstein & C Chothia (1996). "Packing at the Protein-Water Interface," Proceedings of the National Academy of Sciences USA 93: 10167-10172.
       

-- 1995 - 7--

M Gerstein, J Tsai & M Levitt (1995). "The volume of atoms on the protein surface: Calculated from simulation, using Voronoi polyhedra," Journal of Molecular Biology 249: 955-966.
       

M Suzuki, N Yagi & M Gerstein (1995). "DNA-recognition and superstructure-formation by helix-turn-helix proteins," Protein Engineering 8: 329-338.
       

R Altman, C Hughes & M Gerstein (1995). "Methods for Displaying Macromolecular Structural Uncertainty: Application to the Globins," Journal of Molecular Graphics 13: 142-152.
       

M Suzuki, S Brenner, M Gerstein & N Yagi (1995). "DNA recognition code of transcription factors," Protein Engineering 8: 319-328.
       

M Gerstein & R Altman (1995). "Average core structures and variability measures for protein families: Application to the immunoglobulins," Journal of Molecular Biology 251: 161-175.
       

M Suzuki & M Gerstein(1995). "The geometry of alpha-helices binding to DNA," Proteins: Structure, Function, Genetics 23: 525-535.
       

M Gerstein & R Altman (1995). "A Structurally Invariant Core for the Globins," Computer Applications in the Biosciences 11: 633-644.
       

-- 1994 - 7 --

M Gerstein, E Sonnhammer & C Chothia (1994). "Volume Changes on Protein Evolution," Journal of Molecular Biology 236: 1067-1078.
       

M Gerstein (1994). "Purcell's early work on NMR: Contingency versus Inevitability," American Journal of Physics 62: 596-601.
       

M Suzuki, D Neuhaus, M Gerstein & S Aimoto (1994). "Solution structure of the DNA binding octapeptide repeat of the K10 gene product," Protein Engineering 7: 461-470.
       

M Gerstein, A Lesk & C Chothia (1994). "Structural Mechanisms for Domain Movements," Biochemistry 33: 6739-6749.
       

Y Harpaz, M Gerstein & C Chothia (1994). "Volume Changes on Protein Folding," Structure 2: 641-649.
       

R Altman & M Gerstein. (1994). "Finding an Average Core Structure: Application to the Globins," in Proceedings of the Second International Conference on Intelligent Systems in Molecular Biology, 19-27 (Menlo Park, CA, AAAI Press, August 14-17).
       

M Suzuki, M Gerstein & N Yagi (1994). "The stereochemical basis for DNA recognition by Zn fingers," Nucleic Acids Research 22: 3397-3405.
       

-- 1993 - 7 --

S Subramaniam, M Gerstein, D Oesterhelt & R Henderson (1993). "Electron diffraction analysis of structural changes in the photocycle of bacteriorhodopsin," EMBO Journal 12: 1-8.
       

M Gerstein, G Schulz & C Chothia (1993). "Domain Closure in Adenylate Kinase: Joints on Either Side of Two Helices Close Like Neighboring Fingers," Journal of Molecular Biology 229: 494-501.
       

M Gerstein & R Lynden-Bell (1993). "Simulation of Water around a Model Protein Helix. 1. Two-dimensional Projections of Solvent Structure," Journal of Physical Chemistry 97: 2982-2991.
       

M Gerstein & R Lynden-Bell (1993). "What is the natural boundary for a protein in solution?," Journal of Molecular Biology 230: 641-650.
       

M Gerstein & R Lynden-Bell (1993). "Simulation of Water around a Model Protein Helix. 2. The Relative Contributions of Packing, Hydrophobicity, and Hydrogen Bonding," Journal of Physical Chemistry 97: 2991-2999.
       

M Suzuki, M Gerstein & T Johnson (1993). "An NMR study of the DNA-binding 'SPKK' motif and a model for its interaction with DNA," Protein Engineering 6: 565-574.
       

M Gerstein, A Lesk, E Baker, B Anderson, G Norris & C Chothia (1993). "Domain Closure in Lactoferrin: Two Hinges produce a See-saw Motion between Alternative Close-Packed Interfaces," Journal of Molecular Biology 234: 357-372.
       

-- 1992 - 2 --

M Gerstein (1992). "A Resolution-Sensitive Procedure for Comparing Protein Surfaces and its Application to the Comparison of Antigen-Combining Sites," Acta Crystallographica A48: 271-276.
       

I De Baere, L Liu, L Moens, J Van Beeumen, C Gielens, J Richelle, C Trotman, J Finch, M Gerstein & M Perutz (1992). "Polar zipper sequence in the high-affinity hemoglobin of Ascaris suum : Amino acid sequence and structural interpretation," Proceedings of the National Academy of Sciences USA 89: 4638-4642.
       

-- 1991 - 1 --

M Gerstein & C Chothia (1991). "Analysis of Protein Loop Closure: Two Types of Hinges Produce One Motion in Lactate Dehydrogenase," Journal of Molecular Biology 220: 133-149.
       

-- 1987 - 1 --

N Fisch, A Kritz & M Gerstein. (1987). "Inverse Problem for Synchrotron Radiation in the Presence of Noise," in Proceedings of the Sixth Joint Workshop on Electron Cyclotron Emission and Electron Cyclotron Resonance Heating. (eds. A Riviere & A Costley), 23-30 (Oxford, 16-17 September).