Commonly Occurring SCOP Superfamilies in the Proteomes
| SCOP superfamily | Human | Fly | Worm | Yeast | Archaea | Bacteria | |||||||
| N | R | N | R | N | R | N | R | N | R | N | R | ||
| Classic zinc finger, C2H2 | 5092 | 1 | 1096 | 1 | 190 | 10 | 74 | 9 | – | 269 | – | – | |
| Immunoglobulin[iii] | 1214 | 2 | 483 | 3 | 457 | 2 | 8 | 91 | 1 | 135 | 4 | 94 | |
| EGF/laminin | 1192 | 3 | 320 | 4 | 413 | 4 | – | – | – | – | – | – | |
| P-loop containing nucleotide triphosphate hydrolases[iii] | 847 | 4 | 575 | 2 | 516 | 1 | 408 | 1 | 126 | 1 | 168 | 1 | |
| Fibronectin type III[iii] | 842 | 5 | 247 | 7 | 222 | 8 | 1 | 301 | – | – | 1 | 237 | |
| Cadherin | 608 | 6 | 222 | 10 | 135 | 21 | – | – | 3 | 72 | – | – | |
| RNA-binding domain | 587 | 7 | 282 | 5 | 199 | 9 | 128 | 3 | – | – | – | 420 | |
| Protein kinase-like (PK-like)[iii] | 557 | 8 | 271 | 6 | 434 | 3 | 142 | 2 | 3 | 72 | 5 | 82 | |
| Hemeodomain-like | 334 | 9 | 144 | 18 | 145 | 17 | 32 | 20 | 1 | 221 | 17 | 16 | |
| Spectrin repeat | 327 | 10 | 227 | 9 | 150 | 13 | – | – | – | – | – | – | |
| PH domain-like[iii] | 327 | 10 | 140 | 19 | 100 | 31 | 23 | 29 | – | – | – | – | |
| SH3 domain | 304 | 12 | 105 | 23 | 70 | 37 | 29 | 23 | – | – | – | 454 | |
| EF-hand[iii] | 284 | 13 | 163 | 14 | 120 | 26 | 23 | 29 | – | – | – | 420 | |
| Ankyrin repeat | 278 | 14 | 120 | 21 | 128 | 24 | 31 | 22 | – | – | 1 | 342 | |
| Complement control module/SCR domain | 277 | 15 | 57 | 38 | 52 | 43 | – | – | – | – | – | – | |
| PDZ domain-like | 265 | 16 | 103 | 24 | 89 | 32 | 6 | 120 | 1 | 169 | 6 | 64 | |
| Ligand-binding domain of low-density lipoprotein receptor | 247 | 17 | 196 | 12 | 143 | 18 | 3 | 194 | – | – | – | – | |
| Tetratricopeptide repeat (TPR)[iii] | 215 | 18 | 171 | 13 | 115 | 27 | 98 | 5 | 4 | 48 | 16 | 19 | |
| RING-finger domain, C3HC4 | 207 | 19 | 108 | 22 | 122 | 25 | 33 | 19 | – | – | – | – | |
| Trp-Asp repeat (WD-repeat) | 193 | 20 | 198 | 11 | 142 | 19 | 114 | 4 | 2 | 121 | 3 | 157 | |
| C2 domain (Calcium/lipid-binding[iii] domain, CaLB) | 186 | 21 | 68 | 32 | 89 | 32 | 32 | 20 | – | – | – | – | |
| NAD(P)-binding Rossmann-fold domains[iii] | 177 | 22 | 150 | 16 | 130 | 23 | 88 | 7 | 27 | 3 | 72 | 2 | |
| ARM repeat[iii] | 177 | 22 | 137 | 20 | 105 | 28 | 80 | 8 | 1 | 221 | – | – | |
| SH2 domain[iii] | 161 | 24 | 59 | 37 | 72 | 35 | 8 | 91 | – | – | – | – | |
| Thioredoxin-like[iii] | 152 | 25 | 148 | 17 | 148 | 14 | 50 | 12 | 8 | 21 | 18 | 13 | |
| C-type lectin-like[iii] | 149 | 26 | 40 | 53 | 310 | 5 | – | – | – | – | – | 454 | |
| Glucocorticoid receptor-like (DNA-binding domain)[iii] | 143 | 27 | 69 | 31 | 281 | 6 | 14 | 59 | – | – | – | – | |
| ConA-like lectins/glucanases[iii] | 136 | 28 | 66 | 34 | 105 | 28 | 8 | 91 | 1 | 169 | 3 | 157 | |
| Actin-like ATPase domain[iii] | 135 | 29 | 65 | 35 | 38 | 56 | 58 | 10 | 2 | 97 | 12 | 26 | |
| No. distinct proteins in proteome | 28,913 | 13,922 | 16,323 | 6,237 | 2,176 | 2,789 | |||||||
| No. distinct superfamilies in proteome | 546 | 518 | 482 | 434 | 328 | 499 | |||||||
[i] R, the rank of a superfamily within a proteome.
[ii] N, the frequency of domains within this superfamily.
[iii] Denotes that our analysis showed that several PFAM (Bateman et al. 2000) families (and hence several INTERPRO families) are included within the single SCOP superfamily. The number of distinct proteins and the number of domains per superfamily (N) for archaea and bacteria are averages, whereas the number of distinct superfamilies are totals over the species (seven for bacteria and three for archaea).