Manual of the CCTOP server
This panel is for visualizing the information collected and/or
predicted for the submitted protein.
Basic informations about the entry: such as gene name
cross references, the
of the predicted topology, the number of transmembrane segments,
download button for the resulting xml file.
The raw xml description of the given entry. The XSD
of the xml files can be found
Color-coded amino acid sequence of the given human
based on the determined or predicted topology (red: inside/cytosolic;
yellow: membrane; orange: re-entrant loop; blue:
A graphical representation of the determined and
predicted topology of
the given entry. The graph consists of three parts: the final CCTOP prediction,
the results of the various topology and topography prediction methods
and the collected
constraints aligned to the amino acid sequence of the given entry.
The x-axis on the graph is the position in the given sequence, lower red lines represent
yellow rectangles code transmembrane regions, orange rectangles show
membrane re-entrant loops
and upper blue lines represent outside/extra-cytosolic regions. Thin
gray lines indicate regions,
where the topology information is not predicted/determined.
This tab is selectable for entries of which have solved 3D
structure. It contains
the 3D representation of the structure of the given entry positioned
in the membrane
bilayer. For the 3D representation, the
is used. The membrane
orientation is determined by the
algorithm, data are taken from
Here the initial prediction can be recalculated by selecting any of
the prediction methods or mapped experiments. At the top of this
panel, the reliability of the possible localizations for each
sequence positions is shown. The modified xml can be downloaded at
the bottom of the tab.