TOPO2

Transmembrane Protein Display

Use this form to display a transmembrane protein sequence with TOPO2.

This page will atuomatically generate a TOPO2 image from your entered data.

Please paste in your sequence in fasta format or plain text.

Number of segments

Enter the desired segment information (start_position end_position segment_type)
For segment type, use 1 to designate a transmembrane segment that completely crosses the membrane
and 2 for a partial looping segment.
Example line: 20 40 1

Where does the protein start? (outside - inside)

Fill in data for only those display options you want, and check all the relevant boxes.


Special outside residues
Show cysteine residues
    desired shape #: --- desired color:
Show N-glycosylation sites
    desired shape #: --- desired color:

Show membrane residues
Show charged residues
    acidic residue shape #: --- desired color:
    basic residue shape #: --- desired color:
Show amine residues
    desired shape #: --- desired color:
Show OH residues
    desired shape #: --- desired color:
Show aromatic residues
    desired shape #: --- desired color:
Show proline residues
    desired shape #: --- desired color:

Show signature regions
Number of signature regions
    Enter the desired signatuare region information
    (start_position end_position region_shape region_color)
    Example line: 20 30 3 orange



Show special residues
Number of special residues
    Enter the desired special residues information (position residue_shape residue_color)
    Example line: 77 5 purple

Show residue characters? (yes - no)


For more information, contact Susan Johns of the Sequence Analysis & Consulting Service at UCSF (johns at cgl.ucsf.edu).