Last update: Oct 30th, 2009 on a set of 61,248 entries

ConSurf-DB provides evolutionary conservation profiles for proteins of known structure in the PDB. Amino acid sequences similar to each sequence in the PDB were collected and multiply aligned using PSI-BLAST and MUSCLE, respectively. The evolutionary conservation of each amino acid position in the alignment was calculated using the Rate4Site algorithm, implemented in the ConSurf web-server. The algorithm takes explicitly into account the phylogenetic relations between the aligned proteins and the stochastic nature of the evolutionary process. Rate4Site assigns a conservation level for each residue using an empirical Bayesian inference. Visual inspection of the conservation patterns on the 3-dimensional structure often enables the identification of key residues that comprise the functionally-important regions of the protein.
ConSurf-DB differs from ConSurf in that ConSurf-DB provides pre-calculated conservation profiles, while ConSurf enables considerable flexibility in setting the parameters of the calculation, and accepts optional uploads of atomic coordinates, multiple sequence alignments, and phylogenetic trees for use in the calculation.

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Each structure in the PDB is represented by a 4 character alphanumeric identifier, assigned upon its deposition. For example, 1bxl and 1d66 are identification codes for PDB entries for Bcl-Xl / Bak complex and Gal4 (Residues 1 - 65) complex with 19mer DNA, respectively. More on PDB ID...

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ConSurf will search the Protein Data Base for the sequence which has the highest similarity of your query sequence.

  
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You may submit a list of PDBs you are interested in. The server will gather all the ConSurf-Database related files and output it in a zip folder. For the input file format, please see the FAQ.