I am currently looking at few amino acid positions in human proteins and I would like to get a conservation score with respect to the position for a particular analysis. Please let me know if you have used any pre-computed database or tool/method that can be used to generate such a score. I have set of protein sequence, their corresponding positions at the moment. Conceptually I can use a pipeline of BLAST search followed by alignment and subsequent parsing to find the conservation scores, but I would like to know if this is already implemented as a standard tool by someone else.
I know about the tool CONSURF, which is an interesting tool for residue specific score, but it is more geared towards protein structure derived sequence and not available for whole Uniprot data. Another tool that I am aware of is the PSIC which is being discussed in another question by Tim. AFAIK, PSIC is not available as stand-alone program for download.