Tag: Surface Accessibility

NetSurfP 2.0 – Protein Surface Accessibility & Secondary Structure Predictions

NetSurfP 2.0

:: DESCRIPTION

NetSurfP predicts the surface accessibility and secondary structure of amino acids in an amino acid sequence. The method also simultaneously predicts the reliability for each prediction, in the form of a Z-score. The Z-score is related to the surface prediction, and not the secondary structure.

::DEVELOPER

DTU Health Tech

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

NetSurfP

:: MORE INFORMATION

Citation

A generic method for assignment of reliability scores applied to solvent accessibility predictions.
Bent Petersen, Thomas Nordahl Petersen, Pernille Andersen, Morten Nielsen and Claus Lundegaard1.
BMC Structural Biology 2009, 9:51 doi:10.1186/1472-6807-9-51.

SARpred – Prediction of real value of Surface Accessibility in proteins from Amino Acid Sequence

SARpred

:: DESCRIPTION

SARpred, a neural network based method predicts the real value of surface acessibility (SA) by using multiple sequence alignment. In this method, two feed forward, back-propagation networks are used. The first sequence-to-structure network is trained with PSI-BLAST generated position specific scoring matrices. Further, the initial predictions from the first network and PSIPRED predicted secondary structure are used as input to the second structure-to-structure network. The input is a single letter-code amino acid sequence in free format and output is a real value of surface accessiblity corresponding to the amino acid sequence.

::DEVELOPER

SARpred Team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

  NO

:: MORE INFORMATION

Citation

Garg A, Kaur H & Raghava GP. (2005).
Real value prediction of solvent accessibility in proteins using multiple sequence alignment and secondary structure information.
Proteins. 61: 318-24