Mark Gerstein's Publications
- [01]
- N Fisch, A Kritz & M Gerstein (1987). "Inverse Problem for
Synchrotron Radiation in the Presence of Noise," Proceedings of the
Sixth Joint Workshop on Electron Cyclotron Emission and Electron
Cyclotron Resonance Heating (ed. A Riviere & A Costley), 23-30
(Oxford, 16-17 September).
- [02]
- M Gerstein & C H Chothia (1991). "Analysis of Protein Loop
Closure: Two Types of Hinges Produce One Motion in Lactate
Dehydrogenase," J. Mol. Biol. 220: 133-149.
- -
[Medline Abstract for 91295198]
- [03]
- M Gerstein (1992). "A Resolution-Sensitive Procedure for
Comparing Protein Surfaces and its Application to the Comparison of
Antigen-Combining Sites," Acta Cryst. A48: 271-276.
- -
[Abstract] [ftp directory with
manuscript] [
Talk Abstract]
- [04]
- I De Baere, L Liu, L Moens, J Van Beeumen, C Gielens, J Richelle,
C Trotman, J T Finch, M Gerstein & M F Perutz (1992). "Polar
zipper sequence in the high-affinity hemoglobin of Ascaris suum :
Amino acid sequence and structural interpretation,"
Proc. Natl. Acad. Sci. USA 89: 4638-4642.
- -
[Medline Abstract for 92262495]
- [05]
- C Chothia & M Gerstein (1992). "Protein Design for Domain Closure," in
Muscle as a Machine: Energy Transduction in the Contractile System
(editor M Morales), 149-153 (NIH, Bethesda, Maryland, 13-15 April).
- [06]
- S Subramaniam, M Gerstein, D Oesterhelt & R H Henderson
(1993). "Electron diffraction analysis of structural changes in the
photocycle of bacteriorhodopsin," EMBO J. 12: 1-8.
- -
[Medline Abstract for 93154310]
- [07]
- M Gerstein, G Schulz & C Chothia (1993). "Domain Closure in
Adenylate Kinase: Joints on Either Side of Two Helices Close Like
Neighboring Fingers," J. Mol. Biol. 229: 494-501.
- -
[Medline Abstract for 93156056]
[Summary Graphic]
- [08]
- M Gerstein & R M Lynden-Bell (1993). "Simulation of Water
around a Model Protein Helix. 1. Two-dimensional Projections of
Solvent Structure," J. Phys. Chem. 97: 2982-2991.
- [09]
- M Suzuki & M Gerstein (1993). "Understanding transcription from X-ray
crystal structures: Tactics and Strategy of DNA binding proteins," in
New Developments in Transcription Factor Study (editor M Horikoshi,
Chugai Medical Company, Tokyo).
- [10]
- M Gerstein & R M Lynden-Bell (1993). "What is the natural
boundary for a protein in solution?" J. Mol. Biol. 230:
641-650.
- -
[Medline Abstract for 93217998]
- [11]
- M Gerstein & R M Lynden-Bell (1993). "Simulation of Water
around a Model Protein Helix. 2. The Relative Contributions of
Packing, Hydrophobicity, and Hydrogen Bonding," J. Phys. Chem.
97: 2991-2999.
- -
[Abstract]
- [12]
- M Suzuki, M Gerstein & T Johnson (1993). "An NMR study of
the DNA-binding `SPKK' motif and a model for its interaction with
DNA," Prot. Eng. 6: 565-574.
- -
[Medline Abstract for 94052067]
- [13]
- M Gerstein, A M Lesk, E N Baker, B Anderson, G Norris & C
Chothia (1993). "Domain Closure in Lactoferrin: Two Hinges produce a
See-saw Motion between Alternative Close-Packed Interfaces,"
J. Mol. Biol. 234: 357-372.
- -
[Medline Abstract for 94047086]
[Summary Graphic] [ftp directory
with many pictures]
- [14]
- M Gerstein (1994). "Benefits of the Internet," in 51 Reasons: How
we use the Internet and What it says about the information
superhighway (editors M Stone-Martin & L Breeden, Federation of
American Research Networks, Lexington, MA).
- -
[
Full Text]
[About FARNET
project]
- [15]
- M Gerstein, E Sonnhammer & C Chothia (1994). "Volume
Changes on Protein Evolution," J. Mol. Biol. 236:
1067-1078.
- -
[Medline Abstract for 94166074]
[Abstract + Full Text] [ftp directory]
- [16]
- M Gerstein (1994). "Purcell's early work on NMR:
Contingency versus Inevitability," Am. J. Phys. 62:
596-601.
- -
[Abstract + Full
Text]
- [17]
- M Suzuki, D Neuhaus, M Gerstein & S Aimoto
(1994). "Solution structure of the DNA binding octapeptide repeat of
the K10 gene product," Prot. Eng. 7: 461-470.
- -
[Medline Abstract for 94301993]
- [18]
- M Gerstein, A M Lesk & C Chothia (1994). "Structural
Mechanisms for Domain Movements," Biochemistry 33:
6739-6749.
- -
[Medline Abstract for 94263987]
[Abstract] [ftp directory
with manuscript] [HyperText
Database]
- [19]
- Y Harpaz, M Gerstein & C Chothia (1994). "Volume Changes
on Protein Folding," Structure 2: 641-649.
- - [Medline Abstract for 95006332]
- [20]
- R Altman & M Gerstein (1994). "Finding an Average Core
Structure: Application to the Globins," Proceedings of the Second
International Conferene on Intelligent Systems in Molecular
Biology, 19-27 (Menlo Park, CA, AAAI Press, August 14-17).
- - [Abstract +
Full Text + Pictures]
- [21]
- M Suzuki, M Gerstein & N Yagi (1994). "The stereochemical
basis for DNA recognition by Zn fingers," Nucl. Acid. Res.
22: 3397-3405.
- - [Medline Abstract for 94359814]
- [22]
- M Gerstein, J Tsai & M Levitt (1995). "The volume of atoms
on the protein surface: Calculated from simulation, using Voronoi
polyhedra," J. Mol. Biol. 249: 955-966.
- -
[ftp
directory with manuscript, talks, programs & data]
- [23]
- M Suzuki, N Yagi & M Gerstein (1995). "DNA-recognition and
superstructure-formation by helix-turn-helix proteins,"
Prot. Eng. 8: 329-338.
- [24]
- R Altman, C Hughes & M Gerstein (1995). "Methods for
Displaying Macromolecular Structural Uncertainty: Application to the
Globins," J. Mol. Graph. 13: 142-152.
- -
[
Pictures made with program]] [ProteanD
program]
- [25]
- M Suzuki, S Brenner, M Gerstein & N Yagi (1995). "A DNA
Recognition Code for Transcription Factors," Prot. Eng.
8: 319-328.
- [26]
- M Gerstein (1995). "A Protein Motions Database," PDB
Quart. Newsletter 73: 2 (July).
- -
[ftp directory with
full text of newsletter]
[HyperText
Database]
- [27]
- M Gerstein & R Altman (1995). "Average core structures and
variability measures for protein families: Application to the
immunoglobulins," J. Mol. Biol. 251: 161-175.
- -
[ftp directory with
full text + other stuff]
- [28]
- M Gerstein & M Levitt (1995). "Water & Biological
Macromolecules," Sci. Am. (in press).
- -
[Water Simulation Page]
- [29]
- M Gerstein (1995). "A Protein Motions Database," in Protein
Motions (ed. S Subbiah, Austin, TX, RG Landes, in press).
- [30]
- M Gerstein & R Altman. "A Structurally Invariant Core for
the Globins," CABIOS (in press).
- -
[ftp directory with
full text + other stuff]
- [31]
- M Suzuki & M Gerstein (1995). "The geometry of
alpha-helices binding to DNA," Proteins: Struc. Func. Genet.
(in press).
- [32]
- M Gerstein, A Lesk & C Chothia (1995). "Structural
Mechanisms for Protein Movements," in Protein Motions (ed. S
Subbiah, Austin, TX, RG Landes, in press).
Papers Submitted or In Preparation
10 August 1995 /
mbg@hyper.stanford.edu