Welcome to HTM-ONE
Prediction of One-dimensional Structural Properties of Helical Transmembrane Proteins
Main module of this web server (HTM-ONE) takes single amino acid sequence as input and returns residue-wise prediction of
several one-dimensional structural properties of helical transmembrane regions.
Properties considered are: Solvent accesibility of whole residue, its side chain, main chain, polar group and non-polar group atoms, helix-helix contacting residues,
and dihedral angles Kappa, Alpha, Phi and Psi.
See a sample output by clicking here
Server performance on the training data is shown here
Data set of proteins used in training is shown here
A test sequence is provided below
Copy the sequence, paste in the text box above and press the predict button to see an example of prediction using evolutionary information (PSSM).
HTMONE-TEST is a module of HTM-ONE, designed to estimate, how much a given structural property of a residue in TM
protein differs from their expected values. Expected value is predicted using PSSM
information and neural network trained on previously known structures. Predicted and observed states are compared to determine unusually structured residues.
Since, helix-helix contact requires exact identification of helices, only the remaining seven (redundant) properties (viz. three ASA values, and foure torsion angles) considered for HTM-ONE
are compared in this server. Users can make comparison of a structure by providing PDB code or upload a new coordiate file in the following.|
Reference: Integrated prediction of one-dimensional structural features and their relationships with conformational flexibility in helical membrane proteins
S Ahmad, Y Singh, Y Paudel, T Mori, Y Sugita, K Mizuguchi
BMC bioinformatics 11 (1), 533