Secondary Structure Matching (SSM) is an interactive
service for comparing protein structures in 3D. The service provides
for:
- pairwise comparison and 3D alignment of protein structures
- multiple comparison
and 3D alignment of protein structures
- examination of a protein structure for similarity with the whole
PDB or
SCOP archives
- best Ca-alignment of
compared structures
- download and visualisation of best-superposed structures using
Rasmol
(Unix/Linux platforms),
Rastop
(MS Windows machines) and Jmol
(platform-independent server-side java viewer)
- linking the results to other services -
PDBe Motif,
OCA,
SCOP,
GeneCensus,
FSSP,
3Dee,
CATH,
PDBSum,
SWISS-PROT
and ProtoMap.
It is recommended that you read "Tips" and "Visualisation" from the
following list before working with the server for the first time.
Other topics may also be useful.
SSM compares to other protein matching services, see results
here.
SSM is used as a structure search engine in
PISA
service (Protein Interfaces,
Surfaces and Assemblies).
SSM queries may be launched from any web site, see instructions
here.
SSM is based on the CCP4 Coordinate Library, found
here.
FEEDBACK
We appreciate you using this service. We keep working on it in order
to better meet the needs of protein science community.
If the service has not met your expectations, we would be grateful
if you let us know why. Any questions, comments, suggestions and bug
reports are welcome.
Send your message
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