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Sequence Analysis
> Structure: Protein 2D

Protein 2D Analysis

Secondary Structure

open in new windowPredictprotein server integrates feature prediction for secondary structure, solvent accessibility, transmembrane helices, globular regions, coiled-coil regions, structural switch regions, B-values, disorder regions, intra-residue contacts, protein-protein and protein-DNA binding sites, sub-cellular localization, domain boundaries, beta-barrels, cysteine bonds, metal binding sites and disulphide bridges.

open in new windowProtein Secondary structure Tools - at PBIL
open in new windowPSIpred - Prediction of secondary structure from multiple sequences
open in new windowSAM-TO2 - HMM-based Protein Structure Prediction at UCSC
open in new windowCOILS - Prediction of Coiled Coil Regions in Proteins at the ISREC server
open in new windowMultiCoil - Prediction of two- and three-stranded coiled coils
open in new windowPairCoil - Prediction of coiled coil regions in proteins (Berger's method)
open in new windowDecomposing protein structure into loop-like elements - at Haifa University
Rotem's tools list for 2D prediction tools

Topology Prediction

open in new windowTOPCONS Consensus prediction of membrane protein topology
open in new windowHMMTOP - an automatic server for predicting transmembrane helices and topology of proteins
open in new windowDAS-TMfilter server
open in new windowPSORT - Prediction of protein subcellular localization
open in new windowSOSUI - Prediction of transmembrane regions at Nagoya University
open in new windowTargetP - Prediction of subcellular location
open in new windowTMHMM - server for Prediction of transmembrane helices in proteins at CBS
open in new windowTMpred - Prediction of Transmembrane Regions and Orientation
open in new windowSPLIT Transmembrane Protein Topology Prediction Server provides clear and colourful output including beta preference and modified hydrophobic moment index.
open in new windowMINNOU Membrane protein IdeNtificatioN withOUt explicit use of hydropathy profiles and alignments. Sequence-based prediction of relative lipid accessibility.
open in new windowPhobius - A combined transmembrane topology and signal peptide predictor
open in new windowRHYTHM predicts the orientation of transmembrane helices in channels and membrane-coils, specifically buried versus exposed residues.
open in new windowSuperLooper provides an online interface for the automatic, quick and interactive search and placement of loops in proteins.
Rotem's tools list of Membrane Protein and Signal Peptide Prediction

Special Databases

open in new windowARAMEMNON - plant membrane protein database

Proteomics Tools Servers

open in new windowEXPASY - Proteomic Tools