Table 1 The essential differences of (PS)2-original, (PS)2-CASP8 and (PS)2-v2
From: (PS)2-v2: template-based protein structure prediction server
Steps | (PS)2-original[16] | (PS)2-CASP8[17] | (PS)2-v2 |
|---|---|---|---|
1. Template search | Consensus of PSI-BLAST and IMPALA | S2A2+PSSM with a self-developed aligned tool using dynamic programming | S2A2+PSSM with a modified SSEARCH program [18] |
2. Target-template alignment | Consensus of PSI-BLAST, IMPALA and T-coffee | S2A2+PSSM with a self-developed aligned tool using dynamic programming | S2A2+PSSM with a modified SSEARCH program [18] |
3. Template | Single template | Single template | Multiple templates |
4. Model building | MODELLER with single model | MODELLER with single model | MODELLER with multiple models |
5. Model evaluation | PROCHECK [42] | PROCHECK | ProQ [19] |