Bioinformatics Tools Provided by the Centre
Amino acid sequence/Structural alignment
Align multiple amino acid sequences using BLOSUM62 matrix.
Multiple amino acid sequence alignment tool for comparative modeling. The template structure is utilized to imporve the alignment quality.
Superimpose two protein 3D structures based on the given sequence alignment.
Superimpose many protein 3D structures based on the given multiple sequence alignment.
3D Information Predction from Amino Acid Sequences
Predict locations of protein secondary structures from amino acid sequence based on amino acid propensity.
Predict locations of protein secondary structures from amino acid sequence based on information theory.
Predict locations of protein secondary structures from amino acid sequence based on machine learning technique.
Predict locations of protein secondary structures from amino acid sequence based on "majority is right" method using CF, GOR, and NN.
Predict locations of protein secondary structures from multiply aligned amino acid sequences based on consensus of the result on many sequences and different methods.
Predict accessibility (0.0-1.0) from amino acid sequence.
Protein Structure Description
Calculate phi and psi from a PDB file.
Calculate accessible surface area from PDB file.
Calculate hydrogen bonds.
Draw a contact map.
Find disulfinde bonds in protein 3D structure.
Find a concave on a protein surface.
Identify core forming residues from protein 3D structure.
Calculate SF and identify interwound regions in protein complex.
Map residue conservation (entropy) on Protein 3D structure.
Identify interface residues from protein 3D complex structure.
Protein Interface Prediction
Predict protein complex structure.
Predict RNA interface out of 3D structures of RNA-binding proteins.
Predict DNA interface out of 3D structures of DNA-binding proteins.
Predict protein-protein interface out of protein 3D structure.
