APSSP2: Advanced Protein Secondary Structure Prediction Server

Dr. G P S Raghava, Scientist & Head , Bioinformatics Centre
Institute of Microbial Technology, Sector 39A, Chandigarh, INDIA
OSDDlinux for Standalone, Galaxy & Local version
This server allow to predict the secondary structure of protein's from their amino acid sequence. This is an advanced version of our PSSP server, which participated in CASP3 and in CASP4. PSSP was also part of CAFASP2. Raghava, G. P. S. (2000) Protein secondary structure prediction using nearest neighbor and neural network approach. CASP4: 75-76. This server is also participating in world-wide Live-Bench competition EVA, so you can get the perfomance of methods including APSSP2 from EVA Server. This server is also part of Meta II Prediction server. Please visit, ExPASy Tools for more protein structure prediction tools.

APSSP2 particpated in CASP5 / CAFASP3 and predicted all CASP5 target proteins with high accoracy (See CAFASP3 results) . It got 2nd rank with Q3 = 82.5% (slighlty lower to SSPRO(Ist) Q3=82.7%), and 4th rank Q3=79.0% (Slightly lower than PSIPred, SAM-T02sec and PROFphd) in two categories of CAFASP3. The performance of of APSSP2 in EVA was impressive when all proteins were considered, where it perform better than all other methods (Q3 = 82.9%).

Please visit FORCASP site for more detail about APSSP2.

This web server is based on following publication, please cite if you are using this web server

Raghava, G. P. S. (2002) APSSP2 : A combination method for protein secondary structure prediction based on neural network and example based learning. CASP5. A-132.

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Contact Email Address: raghava@imtech.ernet.in