Skip to main content

Table 1 List of superfamilies used for FMALIGN benchmarking.

From: Improvement of alignment accuracy utilizing sequentially conserved motifs

Superfamily code Superfamily name Structural Class Average length of proteins Average sequence identity(%)
02.01.001 Globin-like All α 142 15.2
02.01.023 Putative DNA-binding domain All α 76 10.0
02.01.050 Cytochromes All α 122 22.0
02.01.060 ACP-like All α 80 23.5
02.01.101 SAM/Pointed domain All α 84 13.3
02.02.027 C2 domain(Calcium/lipid-binding domain, CaLB) All β 75 11.4
02.02.042 Galactose-binding domain-like All β 185 12.6
02.02.058 ISP domain All β 136 23.4
02.02.094 Acid proteases All β 217 20.4
02.02.152 Hedgehog/intein (Hint) domain All β 177 16.9
02.03.018 Phosphatidylinositol-specific phospholipase C (PI-PLC) α and β 286 13.6
02.03.059 Ferredoxin reductase-like, C-terminal NADP-linked domain α and β 132 21.6
02.03.073 Thiamin diphosphate-binding fold (THDP-binding) α and β 236 12.1
02.03.148 "Helical backbone" metal receptor α and β 320 14.4
02.04.010 Chromo domain-like α and β 68 26.3
02.04.088 Regulatory domain in the amino acid metabolism α and β 90 12.2
02.04.218 Ribosome inactivating proteins (RIP) α and β 253 22.1
02.07.017 Leech antihemostatic proteins α and β 47 19.1