Hi, Thanks, i was thinking of a situation where one can model the sequence to a structure based on homologous structures, ie assuming i know the fold - i guess PISA / ASA based estimates are the first thing.
(mainly indeed the likelyhood to aggregate ie the surface property estimates are what i am looking for.) Tommi On Oct 12, 2012, at 8:38 PM, Das, Debanu wrote: > Hi, > > Using a surface property analysis (3D structure is available), I think you > can get a quantitative estimate by using PISA to find the solvent-accessible > area and salvation energy and then comparing that to corresponding values > obtained by using in your lab another protein for calibration (maybe ones > that you label as highly, medium or minimal soluble with known mg/ml). > > If you just want an estimate from sequence analysis for solubility on > heterologous overexpression, you can try: > SOLpro in http://scratch.proteomics.ics.uci.edu/ > Or > http://mips.helmholtz-muenchen.de/proso/proso.seam > http://www.biotech.ou.edu/ > > Thanks, > Debanu > > > -----Original Message----- > From: CCP4 bulletin board [mailto:[email protected]] On Behalf Of Tommi > Kajander > Sent: Friday, October 12, 2012 10:23 AM > To: [email protected] > Subject: [ccp4bb] solubility estimates for domains/structures? > > Hi all, > Does anyone a program/paper that would give some quantitative estimate for > protein solubility based on surface property analysis? > (excluding obvious things such as integral membrane / TM regions) > > Best > Tommi > > > > > Tommi Kajander, Ph.D., Docent Structural Biology and Biophysics Institute of Biotechnology University of Helsinki Viikinkaari 1 (P.O. Box 65) 00014 Helsinki Finland p. +358-9-19158903 [email protected] http://www.biocenter.helsinki.fi/bi/kajander/Kajander_Lab/Home.html
