PROTEIN ANALYSIS / STRUCTURE / PREDICTION LINKS
Structure databases
PDB
(mirror sites
Cambridge
/
EBI
)
3DB Browser
(
Cambridge
/
EBI
)
World Wide PDB
MSD
: Macromolecular Structure Database at EBI
PDB Japan
Metalloprotein database
Expasy
:
Proteomics
tools
.
ProtParam
.
Swissprot
-
SRS
.
BLAST
at NCBI.
Mass Spectrometry :
ProteinProspector
:
MS-Digest
EBI
:
Databases
SRS
Tools
:
Fasta3
.
UniProt
BCM Search Launcher
Protein structure clasification
CATH
DALI
server for protein 3D structure searching
FSSP database
PDBSum
Pfam (
Cambridge
/
St Louis
/
Stockholm
).
ProDom Protein Domain Database
SBASE domain sequence server (Trieste)
SCOP:
Structural Classification of Proteins
SMART
(
Bork
group).
Structure prediction
BMERC PSA Server
Boston University
FFAS03
: Fold & Function Assignment System (
Godzik
group)
Jpred
(
Barton
group)
nnPredict
Cohen et al.
PHD home page
Rost & Sander (
UK
/
USA
)
PREDATOR
Frishman & Argos.
Self Optomised Prediction method
Deleage (IBCP, France)
SSP (Nearest-neighbor segment method)
Solovyev and Salamov
SSPRED
Argos et al.
ZPRED server
Zvelebil et al.
Coiled coils
prediction
COILS
A.Lupas
PAIRCOIL
P.Kim et al.
MULTICOIL
P.Kim et al.
Homology modelling
The NIH Molecular Modeling Home Page
Modeller
(Andrej Sali
Lab
)
Swiss Model: automatic modeller
What If Web Interface
Codon usage
RaCC (Rare Codon Calculator) (
mirror
)
Rare Codon Calculator
Search of rare codons in nucleotide sequence
Miscellaneous
Worthington Enzyme Manual
Last update: 12th May 2008