To any user-specified protein the Functionally Annotated Japanese Protein Structural Information (FUJI) database expeditiously identifies various relevant data including structural information and displays them. For details of instruction on the use and database description, refer to the following outlines.
This work was supported by the Targeted Proteins Research Program (TPRP) from the Ministry of Education, Culture, Sports, Science and Technology (MEXT), Japan.
Input an amino acid sequence in one letter symbols and specify the species classification and the number of homologs to output in the next step.
Homologs are displayed together with structurally aligned regions and the most conserved region. The user can not only modify the homologs and re-identify the most conserved region, but also edit the region itself.
Alignments to PDB and SCOP structures are displayed linearly, with the N-terminus shown at the left. In the same screen are shown Pfam and SMART domain alignments, the most conserved region, predicted disordered, SEG, and coiled-coil regions, the prediction of a signal sequence, trans-membrane domains, subcellular localization, and function.
If structural alignments exist, the aligned regions are displayed three dimensionally. Unaligned regions, gaps in PDB coordinates, the inside and outside of the protein molecule, and the most conserved region are also presented.