SWISS-MODEL

SWISS-MODEL: An automated protein homology-modeling server. SWISS-MODEL (http://swissmodel.expasy.org) is a server for automated comparative modeling of three-dimensional (3D) protein structures. It pioneered the field of automated modeling starting in 1993 and is the most widely-used free web-based automated modeling facility today. In 2002 the server computed 120 000 user requests for 3D protein models. SWISS-MODEL provides several levels of user interaction through its World Wide Web interface: in the ‘first approach mode’ only an amino acid sequence of a protein is submitted to build a 3D model. Template selection, alignment and model building are done completely automated by the server. In the ‘alignment mode’, the modeling process is based on a user-defined target-template alignment. Complex modeling tasks can be handled with the ‘project mode’ using DeepView (Swiss-PdbViewer), an integrated sequence-to-structure workbench. All models are sent back via email with a detailed modeling report. WhatCheck analyses and ANOLEA evaluations are provided optionally. The reliability of SWISS-MODEL is continuously evaluated in the EVA-CM project. The SWISS-MODEL server is under constant development to improve the successful implementation of expert knowledge into an easy-to-use server.


References in zbMATH (referenced in 14 articles )

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  1. Rout, Subhashree; Mahapatra, Rajani Kanta: \textitInsilico analysis of \textitplasmodiumfalciparum CDPK5 protein through molecular modeling, docking and dynamics (2019)
  2. Kasabov, Nikola (ed.): Springer handbook of bio-/neuro-informatics (2014)
  3. Kumari, Sweta; Mohana Priya, Arumugam; Lulu, Sajitha; Tauqueer, Mohammad: Molecular modeling, simulation and virtual screening of ribosomal phosphoprotein P1 from \textitPlasmodiumfalciparum (2014)
  4. Wang, Han; Liu, Bo; Sun, Pingping; Ma, Zhiqiang: A topology structure based outer membrane proteins segment alignment method (2013) ioport
  5. Heinke, Florian; Labudde, Dirk: Membrane protein stability analyses by means of protein energy profiles in case of nephrogenic diabetes insipidus (2012)
  6. Di Luccio, Eric; Koehl, Patrice: A quality metric for homology modeling: the H-factor (2011) ioport
  7. Kassler, Kristin; Meier, Julia; Eichler, Jutta; Sticht, Heinrich: Structural basis for species selectivity in the HIV-1 gp120-CD4 interaction: restoring affinity to gp120 in murine CD4 mimetic peptides (2011) ioport
  8. Alamanova, Denitsa; Stegmaier, Philip; Kel, Alexander E.: Creating pwms of transcription factors using 3D structure-based computation of protein-DNA free binding energies (2010) ioport
  9. Rangwala, Huzefa; Kauffman, Christopher; Karypis, George: \textitsvmprat: SVM-based protein residue annotation toolkit (2009) ioport
  10. Chen, Kui; Huang, Xiaohang: Structural analysis of SNARE motifs from sea perch, \textitLateolabraxjaponicus by computerized approaches (2007)
  11. Zhang, Yuan; Zheng, Nan; Zhong, Yang: Computational characterization and design of SARS coronavirus receptor recognition and antibody neutralization (2007)
  12. Arnold, Konstantin; Bordoli, Lorenza; Kopp, Jürgen; Schwede, Torsten: The swiss-model workspace: A web-based environment for protein structure homology modelling (2006) ioport
  13. Reddy, Ch. Surendhar; Vijayasarathy, K.; Srinivas, E.; Madhavi Sastry, G.; Narahari Sastry, G.: Homology modeling of membrane proteins: a critical assessment (2006)
  14. Schwede, Torsten; Kopp, Jürgen; Guex, Nicolas; Peitsch, Manuel C.: SWISS-MODEL: An automated protein homology-modeling server. (2003) ioport