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Table 3 LOOPP server results for secondary structure matches of Pyrococcus furiosus , Neurospora crassa and Arabidopsis thaliana PA serine protease target sequence with known PDB structures

From: Modeling and structural analysis of PA clan serine proteases

PDB ID Secondary structure    Score Sequence identity (%) Length (%)
  Helical structure (%) Extended (%) Loops /Other (%)    
P. furiosus
Target 2.70 31.76 65.54 - - -
1GBI 0.00 52.41 47.59 3.410 27.14 94.59
1SSX 0.00 55.84 44.16 3.394 27.14 94.59
1GBM 0.00 55.17 44.83 3.357 27.14 94.59
1BOQ 0.00 52.41 47.59 3.343 27.14 94.59
1GBD 0.00 55.17 44.83 3.292 27.14 94.59
N. crassa
Target 0.65 40.00 59.35 - - -
1VCW 2.60 33.77 63.64 3.078 23.87 93.55
1L1J 1.94 31.07 66.99 2.863 28.39 96.13
1TE0 2.74 32.19 65.07 2.742 24.66 87.74
1SOZ 0.00 33.51 66.49 2.535 22.73 93.55
1SOT 2.63 33.55 63.82 2.511 24.50 90.97
A. thaliana
Target 0.00 38.60 61.40 - - -
1L1J 2.34 32.71 64.95 6.423 44.44 92.40
1VCM 3.03 35.76 61.21 6.247 42.69 92.40
1TE0 3.03 33.33 63.64 6.134 42.11 92.40
1Y8T 5.03 39.11 55.87 5.739 44.44 91.81
1SOZ 0.51 34.52 64.97 5.315 42.69 92.40