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Table 4 Detail breakdown of the seed sequence classification of 9 Pfam and 4 SMART domains with positive concordance rate of < 90%

From: On the necessity of dissecting sequence similarity scores into segment-specific contributions for inferring protein homology, function prediction and annotation

Pfam/SMART domains Domain length Positive concordance/Total discordance Total common hits Orphaned hits HMMER2/3 Positive concordance (%) Total discordance (%)
PF00433.19 Pkinase_C 159 108/89 197 55/0 54.82 45.18
PF01426.13 BAH 349 53/10 63 4/0 84.13 15.87
PF02098.11 His_binding 296 19/4 23 0/0 82.61 17.39
PF02965.12 Met_synt_B12 309 14/2 16 0/0 87.50 12.50
PF05594.9 Fil_haemagg 160 122/16 138 17/0 88.41 11.59
PF10590.4 PNPOx_C_seed 112 268/73 341 0/0 78.59 21.41
PF11736.3 DUF3299 235 79/13 92 0/0 85.87 14.13
PF13894.1 zf-C2H2_4 105 2/5 7 577/0 28.57 71.43
PF15612.1 WHIM1 66 29/4 33 3/0 87.88 12.12
SM00185 ARM 66 128/34 162 7/0 79.01 20.99
SM00304 HAMP 122 79/50 129 91/0 61.24 38.76
SM00320 WD40 119 580/137 717 1055/0 80.89 19.11
SM00733 Mterf 49 115/39 155 90/0 74.19 25.16