ICM Manual v.3.9
by Ruben Abagyan,Eugene Raush and Max Totrov
Copyright © 2020, Molsoft LLC
Jun 5 2024

Reference Guide
Command Line User's Guide
 ICM refs
 ICM algorithms
 ICM applications
PrevICM Language Reference
ICM algorithms

[ abm88 | abm89 | aba92 | bor93 | bor94 | eis93 | maa89 | tab94 | doc94 | toa96 | abb97 | cad97 | baa99 | fta02 ]

  • Abagyan, R.A. and Maiorov, V.N. (1988). A simple quantitative representation of polypeptide chain folds: comparison of protein tertiary structures. J. Biomol. Struct. Dyn. 5, 1267-1279.
  • Abagyan, R.A. and Mazur, A.K. (1989). New methodology for computer-aided modeling of biomolecular structure and dynamics. 2. Local deformations and cycles. J. Biomol. Struct. Dyn. 6, 833-845.
  • Abagyan, R.A. and Argos, P. (1992). Optimal protocol and trajectory visualization for conformational searches of peptides and proteins. J. Mol. Biol. 225, 519-532.
  • Borchert, T.V., Abagyan, R.A., Kishan, K.V.R., Zeelen, J.Ph., & Wierenga, R.K. (1994). The crystal structure of an engineered monomeric triosephosphate isomerase, monoTIM: the correct modeling of an eight-residue loop. Structure 1, 205-213.
  • Borchert, T.V., Abagyan, R.A., Jaenicke, R., and Wierenga, R.K. (1994). Design, creation, and characterization of a stable, monomeric triosephosphate isomerase. Proc. Natl. Acad. Sci USA 91, 1515-1518.
  • Eisenmenger, F., Argos, P., and Abagyan,R.A. (1993). A method to configure protein side-chains from the main-chain trace in homology modeling. J. Mol. Biol. 231, 849-860.
  • Mazur, A.K. and Abagyan, R.A. (1989). New methodology for computer-aided modeling of biomolecular structure and dynamics. 1. Non-cyclic structures. J. Biomol. Struct. Dyn. 6, 815-832.
  • Totrov, M.M. and Abagyan, R.A. (1994). Efficient parallelization of the energy, surface and derivative calculations for internal coordinate mechanics. J. Comp. Chem 15, 1105-1112.
  • Totrov, M.M. and Abagyan, R.A. (1994). Detailed ab initio prediction of lysozyme-antibody complex with 1.6 A accuracy. Nature Struct. Biol. 1, 259-263.
  • Totrov, M.M., and Abagyan, R.A. (1996). The contour-buildup algorithm to calculate the analytical molecular surface. J. Struct. Biol. 115, 1-6.
  • Abagyan, R.A., and Batalov, S. (1997) Do aligned sequences share the same fold? J. Mol. Biol., 273, 1, 355-368.
  • Abagyan, R. and Totrov, M. (1997) Contact Area Difference (CAD): A robust measure to evaluate accuracy of protein models. J. Mol. Biol. 268, 678-285.
  • Batalov, S. and Abagyan, R.A., (1999) Universal gap penalty for accurate global-local alignment of biological sequences J. Mol. Biol., Molsoft report.
  • Fernandez-Recio, J., Totrov, M., and Abagyan, R. (2002) Soft Protein-Protein Docking in Internal Coordinates. Protein Science, 11.

ICM refs
ICM applications

Copyright© 1989-2024, Molsoft,LLC - All Rights Reserved. Copyright© 1989-2024, Molsoft,LLC - All Rights Reserved. This document contains proprietary and confidential information of Molsoft, LLC. The content of this document may not be disclosed to third parties, copied or duplicated in any form, in whole or in part, without the prior written permission from Molsoft, LLC.