Conservation Score 寫法

Link

Conservation scores of residues

Conservation of residues is identified by comparing the sequence of PDB (14) entries with sequences deposited in Swiss-Prot (15) using a local implementation of the public server ConSurf (10) (http://consurf.tau.ac.il). The ClustalW (17) aligned homologous sequences found by PSI-BLAST (19) are used to calculate the measure of conservation by the Rate4Site algorithm (20). Residues are classified into nine categories according to their real conservation score. A score of 1 represents the most variable residues and a score of 9 represents the most conservative ones.

In our study of TIM-barrel proteins (11), we have used the following conditions to predict the SRs: (i) H_P ≥ 20 kcal/mol; (ii) LRO ≥ 0.02; (iii) SC ≥ 1; and (iv) conservation score ≥ 6.