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Table 6 HMMER search results within the four chosen substrate families

From: Transferring functional annotations of membrane transporters on the basis of sequence similarity and sequence motifs

 

Ec- At

Ec- Sc

Sc- At

1e-20

1e-16

1e-12

1e-8

1e-4

1e-20

1e-16

1e-12

1e-8

1e-4

1e-20

1e-16

1e-12

1e-8

1e-4

Precision [%]

51.4

58.3

69.1

66.0

57.7

85.2

77.0

72.7

71.3

70.3

99.3

90.4

76.3

71.7

59.9

Recall [%]

51.4

58.3

100.0

93.5

88.7

83.8

82.4

82.3

78.4

74.6

96.2

95.3

93.4

90.1

86.0

F-measure[%]

51.4

58.3

75.9

70.3

61.9

81.9

75.5

73.3

71.1

69.0

97.2

91.4

78.6

75.4

68.2

Unclassified [%]

93.1

88.9

83.3

79.2

65.3

69.4

61.1

55.6

51.4

47.2

45.7

44.3

41.4

34.3

17.1

  1. HMMER prediction results for substrate families. The results were normalized by the size of the reference database (see text). HMMER gave a slightly higher prediction accuracy than BLAST in the Ec-Sc analysis.