1 PEPstr Peptide Tertiary Structure Prediction Server.
2 AMBER Amber is a package of programs for molecular dynamics simulations of proteins and nucleic acids.
3 GROMACS GROMACS (GROningen MAchine for Chemical Simulations) is a molecular dynamics package primarily designed for simulations of proteins, lipids and nucleic acids.
4 Forcefield_NCAA AMBER Forcefield Parameters for Non-canonical Amino Acids.
5 Forcefield_PTM AMBER Forcefield Parameters for Post-translational Modifications.
6 SwissSideChain A molecular and structural database of non-natural side chains.
7 BLAST Basic Local Alignment Search Tool (standalone version)
8 PSIPRED Accurate protein secondary structure prediction.
9 BetaTurns A server for beta-turn types prediction.
If you are using PEPstrMOD, please cite the following articles:
i) Singh, S., Singh, H., Tuknait, A., Chaudhary, K., Singh, B., Kumaran, S. and Raghava, G.P.S. (2015) PEPstrMOD: structure prediction of peptides containing natural, non-natural and modified residues. Biology Direct 10:73.
ii) Kaur, H., Garg, A. and Raghava, G.P.S. (2007) PEPstr: A de novo method for tertiary structure prediction of small bioactive peptides. Protein Pept Lett. 14:626-30.
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