Table 1

Selected families from the HOMSTRAD database for testing the performance of stochastic multiple sequence alignment methods

Family name

Class

Number of sequences

Average length

Average sequence id


Xylose isomerase

Alpha beta barrel

6

388

69%

Annexin

All alpha

6

317

57%

Calcium-binding protein – parvalbumin-like

All alpha

7

107

56%

Starch binding domain

All beta

8

105

52%

Glycosyl hydrolase family 22 (lysozyme)

Alpha+beta

12

126

51%

Legume lectin

All beta

12

234

50%

Papain family cysteine proteinase

Alpha+beta

13

223

40%

Subtilase

Alpha/beta

11

294

40%

Src homology 2 domains

Alpha+beta

11

105

35%

C-type lectin

Alpha+beta

8

126

27%

Halo-peroxidase

Alpha/beta

9

286

25%

Response regulator receiver domain

Alpha/beta

13

122

25%


Miklós et al. BMC Bioinformatics 2008 9:137   doi:10.1186/1471-2105-9-137

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