Internet links in Rachid Maroun's booklets for the Institut Pasteur course Biochimie des Proteines, 2002.

Cours B Prot 2002

Fasc1

General search sites and software

AltaVista
Yahoo - Science
Bio Netbook
EBI BioCatalog
Virtual Library: Biosciences
Oxford Centre for Molecular Sciences
Harvard Dept of MCB - More Biology Links
The National Center for Biotechnology Information
ExPASy Molecular Biology Server
PIR-International Protein Sequence Database
NRL3D Text Search
BLAST Search
SDSC Biology

EMBL

EMBL - European Molecular Biology Laboratory
EMBL WWW Services
The PredictProtein server

EBI

EBI, the European Bioinformatics Institute (EMBL Outstation, Hinxton, UK) serving the bioinformatics community
EMBL Dali: email server for 3-D protein structure database searches
BIOcomputing unit, 3D modelling services
DSSP: Database of Secondary Structure in Proteins
EBI: FSSP database, fold classification based on structure-structure alignment of proteins

SCOP

SCOP: Structural Classification of Proteins

TOPS

Protein Topology home page

RCSB, 3DB Browser, PDBLite, NRL3D

3DB Browser at the EBI mirror site
PDB mirror site
RCSB Home Page
PDBsum

Protein quality verification

Biotech Validation Suite for Protein Structures
PROCHECK - protein structure checks

Protein-Protein Interaction Analysis Server

SwissProt

ExPASy Molecular Biology Server

NCBI

The National Center for Biotechnology Information
Taxonomy (Homo sapiens)

Modeling

SWISS-MODEL
BIOMOLECULAR MODELLING LABORATORY, ICRF
Server page
Universal Molecular Modeling Software List

Courses Tutorials

Module 2 - Basic Molecular Modelling
Module 7 - Advanced Molecular Modelling
CHB221 Molecular Modelling: Index
CHB221 Molecular Modelling, General overview
Statistical Mechanics
Molecular Dynamics
BCG Lecture 7: Protein structure/function prediction
BCG: Four levels of protein structure description
Tutorial-Introduction to Macromolecular Simulation
Neural Nets by Kevin Gurney

Logiciels commerciaux

ICM/MOLSOFT: Molecular modeling and computational chemistry ICM
Accelrys - Life science simulation and analysis

Fasc3

ExPASy Molecular Biology Server
PIR-International Protein Sequence Database
RCSB Home Page
PDB SearchLite
Appendix B - Brookhaven PDB file format
mmCIF
Send a new protein to be checked.
PROCHECK Sample plots
Protein Topology home page

Fasc5

CATH database of structural domains

Fasc6

Prediction de la structure secondaire

Submit to PredictProtein (expert)
Jpred - A consensus secondary structure prediction server

Threading

The PredictProtein server
3-D Structure analysis; threading: 123D
UCLA-DOE Fold Recognition Server
Cartan Login Page
3D-PSSM Protein Fold Recognition (Threading) Server
FUGUE Profile Lib Search