Details
FireDBFireDB is a fully automated search system for structures in the Protein Data Bank, that contain annotations of residues participating in a functional site. The Database can be accessed by PDB codes or UniProt accession numbers. The sources of functional residues are protein-ligand atom contacts and the
Catalytic Site Atlas
A deteiled description of FireDB output in the FireDB online help. | |
firestarfirestar obtains predictions based on PSI-BLAST and HHsearch alignments against DB template database, reliability of predictions is assesed with SQUARE method and displayed in a readable manner. PSI-BLAST and HHsearch hits are used to obtain Multiple Sequence Alignment with MUSCLE, functional information is highlighted in the alignment.A detailed description of the functionalities and methods of firestar is available in the firestar online help. | |
Ligand InfoEvery ligand compound in the PDB is stored in tables with its chemical description,
the PDB structures in which it is present and the amino acids pre-calculated to be in
contact with the ligand. | |
What's newIn this page you can find the time registry of all changes, updates and improvements were made to FireDB and firestar server. |
Additional tools:
The Ligand Contact Tool (LCT)LCT is a tool to calculate contacts between protein residues and ligand atoms. A PDB format file can be scanned, queries acepted are uploadable PDB format file or
PDB accession code. Several parameters are available: |