Prediction Tools
HMM-TM HMM-TM:
A Hidden Markov Model method for the topology prediction of alpha-helical membrane proteins that incorporates experimentally derived topological information.
PRED-TMBB PRED-TMBB:
Predicting and discriminating beta-barrel outer membrane proteins with Hidden Markov Models
PRED-COUPLE 2:
A tool that predicts the coupling specificity of G-protein coupled receptors to G-proteins
pred-couple
PredSL:
PREDiction of Subcellular Location from the N-terminal Sequence
PRED-COUPLE:
A method that implements refined profile Hidden Markov Models to predict the coupling specificity of G-protein coupled receptors to G-proteins
pred-couple
ConBBPRED:
Consensus Prediction of TransMembrane Beta-Barrel Proteins
PRED-GPCR:
GPCR Family Classification from sequence alone based on a probabilistic method that uses family-specific profile Hidden Markov Models
pred-gpcr
MCMBB:
Discrimination of beta-barrel outer membrane proteins with a Markov chain model
waveTM:
Wavelet-based prediction of transmembrane segments in a-helical membrane proteins
waveTM
predclass PRED-CLASS:
A system of cascading neural networks that classifies any protein, given its aminoacid sequence alone, into one of four possible classes: membrane, globular, fibrous, mixed
CoPreTHi:
Combines the results of several methods that Predict Transmembrane regions in a joint prediction Histogram
Cop_logo
orientm orienTM:
Topology Prediction of transmembrane proteins and segments
PRED-TMR2:
PRED-TMR application with Neural Network preprocessing
PRED-TMR2
PRED-TMR PRED-TMR:
Prediction of Transmembrane Segments in proteins based on statistical analysis
SecStr:
Secondary Structure Prediction
secstr
Biological Databases
cuticleDBlogo cuticleDB:
A relational database containing all structural proteins of Arthropod cuticle identified to date
gpDB:
a database of G-proteins and their interaction with GPCRs
gpDB
Applications for Sequence and Structure Analysis
hPATM hPATM:
heuristic pairwise alignment for transmembrane proteins.
TMRPres2D TMRPres2D:
High quality visual representation of transmembrane protein models
GeneVito:
Genome Visualization Tool
GeneVito
non_red3 NON-RED:
A web tool to select biological sequences from a given set, with similarity/homology less than a user-defined level
CAST:
Low-complexity region detection and selective masking
cast
DAM-Bio DAM-Bio:
An integrated environment to support protein sequence and structure analysis
FT:
Study of Residue Periodicities in Sequences
FT