Based on our rotamer library, we built a side chain predictor, position-dependent antibody rotamer swapper (PEARS).  On a blind test set of 95 antibody model structures, PEARS had the highest average χ1 and χ1+2 accuracy (78.7% and 64.8%) compared to three leading backbone-dependent side chain predictors.  Our use of IMGT position, rather than backbone ϕ/ψ, meant that PEARS was more robust to errors in the backbone of the model structure.  PEARS also achieved the lowest number of side chain-side chain clashes.  PEARS is freely available as a web application at http://opig.stats.ox.ac.uk/webapps/pears.
PEARS
Based on our rotamer library, we built a side chain predictor, position-dependent antibody rotamer swapper (PEARS).  On a blind test set of 95 antibody model structures, PEARS had the highest average χ1 and χ1+2 accuracy (78.7% and 64.8%) compared to three leading backbone-dependent side chain predictors.  Our use of IMGT position, rather than backbone ϕ/ψ, meant that PEARS was more robust to errors in the backbone of the model structure.  PEARS also achieved the lowest number of side chain-side chain clashes.  PEARS is freely available as a web application at http://opig.stats.ox.ac.uk/webapps/pears.
PEARS