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Automated protein modelling

Perrakis A, Morris R, Lamzin VS. Automated protein model building combined with iterative structure refinement. Nat Struct Biol 1998 6 458-63. [Pg.297]

Swiss-Model Automated protein modeling server http //expasy.hcuge.ch/swissmod/ SWISS-MODEL... [Pg.2860]

MC Peitsch. PROMOD and SWISS-MODEL Internet-based tools for automated comparative protein modeling. Biochem Soc Trans 24 274-279, 1996. [Pg.312]

Lamzin VS, Wilson KS. Automated refinement of protein models. Acta Cryst 1993 049 129-47. [Pg.297]

Swiss-Model (An Automated Knowledge-Based Protein Modelling Server)... [Pg.372]

Lamzin, V. S., Perrakis, A. and Wilson, K. S. (2001). The ARP/wARP suite for automated construction and refinement of protein models. In International Tables for Crystallography. Volume F Crystallography of biological macromolecules, Rossmann, M. G. and Arnold, E. eds., pp. 720-722. Dordrecht, Kluwer Academic Publishers, The Netherlands. [Pg.171]

M. C. Peitsch, ProMod and SwissModel internet-based tools for automated comparative protein modelling,... [Pg.432]

SWISS-MODEL Automated comparative protein-modeling server 176 expasy.hcuge.ch/swissmod/SWISS-MODEL.html... [Pg.444]

Schwede T, Kopp J, Guex N et al, SWISS-MODEL an automated protein homology-modeling server. Nucleic Acids Res 2003 31 3381-3385. [Pg.470]

Fig. 12 The 2Fob-Fcak omit map used in the automated query. The 2Fobs-Fca c omit map calculated with all reflections to 2.88 A using CNS, map was phased from five shaken high temperature annealed protein models also run at 2.88 A. This omit map exhibits a similar spatial distribution and total volume by comparison with the map in Fig. 11a, but it possesses a single contiguous volume suitable for automated fitting of conformational databases as described in the text. X-ligand was used to locate maximum unoccupied volume of density (highlighted in gold) and to flexibly fit epothilone rotamers from the conformational database. Only two orientations of ligand, as depicted above, were found to satisfy the density shape... Fig. 12 The 2Fob-Fcak omit map used in the automated query. The 2Fobs-Fca c omit map calculated with all reflections to 2.88 A using CNS, map was phased from five shaken high temperature annealed protein models also run at 2.88 A. This omit map exhibits a similar spatial distribution and total volume by comparison with the map in Fig. 11a, but it possesses a single contiguous volume suitable for automated fitting of conformational databases as described in the text. X-ligand was used to locate maximum unoccupied volume of density (highlighted in gold) and to flexibly fit epothilone rotamers from the conformational database. Only two orientations of ligand, as depicted above, were found to satisfy the density shape...
Bates, P. A., Jackson, R. M., and Sternberg, M. J. E., Model building by comparison a combination of expert knowledge and computer automation. Proteins, Suppl. 1, 59, 1997. [Pg.143]

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