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Table 1 Proposed template structures obtained from three threading methods along with the calculated scores.

From: Sequence analysis and structure prediction of type II Pseudomonas sp. USM 4–55 PHA synthase and an insight into its catalytic mechanism

Method Template Fold % id Score
3DPSSM Human Gastric Lipase (PDB id: 1HLG) α/β hydrolase fold 11 E valuea = 0.00888
  Human soluble epoxide hydrolase (PDB id: 1S8O) α/β hydrolase fold 14 E value = 0.327
  Bromoperoxidase (PDB id: 1BRT) α/β hydrolase fold 11 E value = 0.519
mGenThreader Haloalkane Dehalogenase (PDB id: 1BN6:A) α/β hydrolase fold 11 E valueb = 3e-05
  Mouse Epoxide Hydrolase (PDB id: 1CR6:A) α/β hydrolase fold 8 E value = 3e-05
  Human Gastric Lipase (PDB id: 1HLG:A) α/β hydrolase fold 11 E value = 3e-05
FUGUE Human Gastric Lipase (PDB id: 1HLG:A) α/β hydrolase fold 11 Z-SCOREc = 7.86
  Hydroxynitrile-Lyase (PDB id: 1QJ4) α/β hydrolase fold 11 Z-SCORE = 6.31
  Proline Iminopeptidase (PDB id: 1AZW) α/β hydrolase fold 12 Z-SCORE = 5.08
  1. a E-value must be as low as possible
  2. b E-value < 0.001; very significant and certain
  3. c Recommended cutoff : Z-SCORE >= 6.0 (CERTAIN 99% confidence)