ProSeg - a database of local structures of protein segments

Introduction

ProSeg is a database of local structures of protein segments. ProSeg contains thousands of clusters of protein segments that were classified according to their three-dimensional structural resemblance.

Reference

Sawada & Honda (2009) "ProSeg: a database of local structures of protein segments" J. Comput. Aided Mol. Des.

Search

You can search a cluster(s) by inputting appropriate parameters, which identify the backbone structure of a query segment. In ProSeg, there are three ways to identify the backbone structure of the segment: PDB ID, dihedral angles, and DSSP symbols.

Input PDB ID and specify Chain ID and central residue of the segment that you are interested in. Next click calculate. Accordingly, the dihedral angles of the segment will be displayed in the below panel. Finally, click search.

PDB ID : Chain ID : Center Residue No. :

ex.

PDB ID: 1A2P Chain ID: A Center Residue No.: 45
Alternatively, input the dihedral angles of the segment directly. Then, click search. Match the number of rows to the segment length (default: L=9).

Phi Psi Omega

ex.
Phi Psi Omega
-64.8 -38.7 179.5
-65.1 -39.8 179.3
-65.0 -40.5 179.3
-64.2 -41.1 179.3
-64.4 -41.0 179.3
-64.5 -40.9 179.4
-64.8 -40.4 179.6
-65.7 -38.6 179.9
-69.5 -34.1 180.0
Otherwise, input DSSP symbols that denote the types of the secondary structures of a query segment. Then, click search by DSSP. Match the number of letters to the segment length (default: L=9).

ex.
HHHHT_SEE

PDB ID :	Chain ID :	Center Residue No. :
ex.
PDB ID: 1A2P	Chain ID: A	Center Residue No.: 45