About Server

The server BetaTPred is developed for predicting ß-turns in a protein from the amino acid sequence. It allows the user

• to predict turns in a protein using existing statistical algorithms.
• to predict the type of ß-turn such as Type I, I', II, II', VI, VIII and non-specific i.e., advanced prediction.
• to predict the consensus ß-turn in a protein.

  It implements the following algorithms:

  Chou-Fasman algorithm which depends on assigning a set of prediction values (positional frequencies and conformational parameters) for a given type of secondary structure to the residues in the sequence.

  Thornton's algorithm which is same as the statistical method employed by Chou-Fasman but provides turn classification as Types I and II.

  1-4 & 2-3 correlation model which is based on the coupling effect between residues 1 & 4 and 2 & 3 in a tetrapeptide sequence and thus uses conditional probabilities in calculating the probability of forming a turn.

  Sequence coupled model is a residue coupled model based on First-order Markov Chain. It gives a special consideration to the coupling effect between the adjacent residues. Also provides turn classification such as Types I, I', II, II', VI and VIII.

  Gorbturn (v3.0) is a fortran program that uses the differential positional sequence preferences for different turn types and the directional parameters to eliminate potential helix and strand forming residues from turn prediction. Also provides turn classification such as Types I, I', II, II', VIII and non-specific.

Please cite the following paper if you are using BetaTPred for your research

Kaur, H. and Raghava, G.P.S. (2002) BetaTpred:Prediction of beta-turns in a protein using statistical algorithms.Bioinformatics 18:498-9