This is an initial version of the continuous DSSP (DSSPcont) web site.
mirrored at CUBIC in the USA,
site is based on the work presented in:
Continuous secondary structure correlates with protein motion
Claus A.F. Andersen, Arthur G. Palmer, Soren Brunak and Burkhard Rost
The DSSP program automates protein secondary structure assignment, using an
algorithm that assigns every residue to one of eight states. However, any discrete
assignment is incomplete, because the continuum of thermal fluctuations cannot be
described. Hence, a continuous assignment of secondary structure that replaces
'static' by 'dynamic' states is proposed. Technically, continuous DSSP
assignments were obtained as weighted averages over ten DSSP assignments with
different hydrogen bond thresholds. The continuous DSSP assignments calculated
from a single set of coordinates reflect the structural variations due to thermal
fluctuations. We anticipate that continuous secondary structure assignments may
impact future protein structure comparison and prediction.
The DSSPcont output can originate from one X-ray structure, the
average over all NMR models for a given structure or DSSPcont output for
a single model.
- Given a PDB identifier retrieve the DSSPcont output.
- Given a PDB file retrieve the DSSPcont output.
- Retrieval of the DSSPcont output for all PDB files.
- Downloading the DSSPcont program.
- Downloading the PERL package handling DSSPcont output.
We can presently provide the DSSPcont output for
an example, and in an internal format for the entire
data set (slow! 4MB, gzip) used in our study.
The PDB id's for the
data sets used can also be retrieved.