Table 1 Factors affecting the accuracy and speed of SARST2

From: SARST2 high-throughput and resource-efficient protein structure alignment against massive databases

Disabled function

Average precision (%)

Difference in precision (%)

Running time with 32 processors (ms)

Difference in running time (ms)

None (all enabled)

96.28

0.00

150.03

0.00

Synthesized DP

94.37

–1.91

206.69

56.66

WCN

95.01

–1.27

195.38

45.35

SMSSE

93.37

–2.91

182.59

32.56

SMAAT

95.23

–1.05

166.43

16.40

Variable gap penalty

95.69

–0.59

150.32

0.29

Diagonal word-matching

95.35

–0.93

469.70

319.67

Grouped searching

96.02

–0.26

324.68

174.65

Machine learning

95.42

–0.86

821.91

671.88