This page enables you to find the proteins in the pdb database that have specific sheet motifs. The radio buttons have pre-selected values that you can change by clicking around. You have to specify the sequence of strands. You can also specify the strand orientations (up or down), the loop lengths between the strands (long or short), and the type of protein (all beta or alpha/beta). Those three selections are optional, and you can omit them by clicking the appropriate i don't care button. After you filled out the form, click the execute button at the end of the page. If any of the specified sheet motifs were found in the database, the standard 4 letter/digit abbreviation of the protein pdb file will be displayed. Click on the Huh?s for help.



Specify the strand sequence: Huh?

Select a position for each strand. You can not choose the same position twice - it will give you an error on the output form! This selection is optional - click the i don't care button to omit the strand sequence.

i don't care
strand 1	1 2
strand 2	1 2 3 4
strand 3	1 2 3 4
strand 4	1 2 3 4

Specify the strand orientation: Huh?

Select the orientation for each strand. 0 is up, 1 is down. This selection is optional - click the i don't care button to omit the strand orientations.

i don't care
strand 1	0
strand 2	0 1
strand 3	0 1
strand 4	0 1

Specify the loop lengths: Huh?

Select the loop lengths between each pair of strands. 0 is short (10 residues or less), 1 is long (more than ten residues). This selection is optional - click the i don't care button to omit the loop lengths.

i don't care
loop 1	0 1
loop 2	0 1
loop 3	0 1

Specify the type of the protein: Huh?

Select the type of the protein. alpha/beta are proteins with at least 20% of the residues in a helix, all beta proteins have less than 20% of the residues in a helix. This selection is optional - click the i don't care button (default) to omit the protein type.

i don't care alpha/beta all beta

Specify the protein length range: Huh?

Select the range for the number of amino acids in the domains or proteins you want to allow.

residues minimum residues maximum