NetCSSP 20200622 – Neural networks for calculating Contact-dependent Secondary Structure Propensity

NetCSSP 20200622

:: DESCRIPTION

NetCSSP is an applications in predicting non-native secondary structures and amyloid fibril formation.

::DEVELOPER

Lab of Bioinformatics and Molecular Design

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Web Browser

:: DOWNLOAD

:: MORE INFORMATION

Citation

Nucleic Acids Res. 2009 Jul;37(Web Server issue):W469-73. doi: 10.1093/nar/gkp351. Epub 2009 May 25.
NetCSSP: web application for predicting chameleon sequences and amyloid fibril formation.
Kim C, Choi J, Lee SJ, Welsh WJ, Yoon S.

Presep 1.0 – Predicting the Propensity of a Protein being secreted into the Supernatant when Expressed in Pichia pastoris

Presep 1.0

:: DESCRIPTION

Presep is a machine-learning approach which assesses the likelihood of a recombinant protein being secreted by P. pastoris based on its pseudo amino acid composition (PseAA).

::DEVELOPER

Biotechnology Research Institute, Chinese Academy of Agricultural Sciences

:: SCREENSHOTS

n/a

:: REQUIREMENTS

Windows/Mac OsX / Linux
R
Perl

:: DOWNLOAD

Presep

:: MORE INFORMATION

Citation

Presep: predicting the propensity of a protein being secreted into the supernatant when expressed in Pichia pastoris.
Tian J, Zhang Y, Liu B, Zuo D, Jiang T, Guo J, Zhang W, Wu N, Fan Y.
PLoS One. 2013 Nov 21;8(11):e79749. doi: 10.1371/journal.pone.0079749.

AMYLPRED – A Consensus Method for Amyloid Propensity Prediction

AMYLPRED

:: DESCRIPTION

AMYL-PRED is a consensus prediction method for identifying possible amyloidogenic regions in protein sequences.

::DEVELOPER

The Biophysics and Bioinformatics Laboratory

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Web browser

:: DOWNLOAD

:: MORE INFORMATION

Citation

BMC Struct Biol. 2009 Jul 9;9:44. doi: 10.1186/1472-6807-9-44.
Amyloidogenic determinants are usually not buried.
Frousios KK, Iconomidou VA, Karletidi CM, Hamodrakas SJ.

CRYSTALP2 – Sequence-based Protein Crystallization Propensity prediction

CRYSTALP2

:: DESCRIPTION

CRYSTALP2 is designed for in-silico prediction of protein crystallization propensity.

::DEVELOPER

Kurgan Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Web Browser

:: DOWNLOAD

:: MORE INFORMATION

Citation

BMC Struct Biol. 2009 Jul 31;9:50. doi: 10.1186/1472-6807-9-50.
CRYSTALP2: sequence-based protein crystallization propensity prediction.
Kurgan L1, Razib AA, Aghakhani S, Dick S, Mizianty M, Jahandideh S.