Skip to main content

Advertisement

Table 1 SCOP folds included in the dataset of α-helices, β-strands and other conformation

From: Dependence of α-helical and β-sheet amino acid propensities on the overall protein fold type

SCOP Class SCOP Fold NE j 1 N j 2 α-helix β-strand Other
     Nα j 3(fαexp j )6 Nβ j 4(fβexp j )7 NO j 5(fOexp j )8
All α proteins 4-helical cytokines 24 3,452 2,272 (50)     
  Alpha/alpha toroid 25 10,766 5,410 (32)    4,611 (56)
  Alpha-alpha superhelix 48 11,524 8,213 (48)    3,270 (76)
  Cytochrome P450 19 7,811 4,042 (43)    3,008 (63)
  EF Hand-like 56 7,106 4,244 (54)    2,739 (76)
  Ferritin-like 40 7,261 5,354 (35)     
  Four-helical up-and-down bundle 45 5,800 4,344 (55)     
  Globin-like 30 4,223 3,161 (56)     
  HD-domain/PDEase-like 12 3,487 2,248 (43)     
  Heme oxygenase-like 15 3,364 2,369 (43)     
  L-aspartase-like 14 6,699 4,154 (32)    2,217 (45)
  Nuclear receptor ligand-binding domain 20 4,747 3,221 (48)     
α/β proteins Adenine nucleotide alpha hydrolase-like 33 7,219 3,398 (49)    2,716 (60)
  ALDH-like 11 5,122 2,198 (43)     
  Alpha/beta-Hydrolases 74 23,468 9,192 (42) 3,985 (23) 10,291 (54)
  ClpP/crotonase 19 4,736 2,369 (38)     
  Flavodoxin-like 96 17,354 7,063 (49) 3,218 (24) 7,073 (58)
  HAD-like 47 10,900 4,853 (54)    4,231 (59)
  Isocitrate/Isopropylmalate dehydrogenase-like 17 6,267 2,869 (45)    2,239 (56)
  NAD(P)-binding Rossmann-fold domains 100 26,500 12,116 (40) 4,312 (18) 10,072 (57)
  Nucleotide-diphospho-sugar transferases 24 6,359 2,297 (47)    2,723 (61)
  Periplasmic binding protein-like II 46 14,225 5,593 (49) 2,916 (29) 5,716 (59)
  Phosphorylase/hydrolase-like 36 9,424 3,277 (43) 2,105 (22) 4,042 (57)
  P-loop containing nucleoside triphosphate hydrolases 170 39,025 16,859 (52) 7,524 (27) 14,882 (64)
  PLP-dependent transferases 77 30,112 13,025 (43) 4,509 (16) 12,578 (43)
  Restriction endonuclease-like 30 6,407 2,631 (50)    2,447 (64)
  Ribokinase-like 24 7,234 3,029 (42)    2,589 (59)
  Ribonuclease H-like motif 33 6,808 2,832 (49)    2,585 (70)
  S-adenosyl-L-methionine-dependent methyltransferases 92 23,315 8,567 (49) 5,538 (31) 9,210 (62)
  SIS domain 14 4,150 2,171 (38)     
  Thioredoxin fold 82 11,085 3,845 (59) 2,400 (29) 4,840 (67)
  TIM beta/alpha-barrel 261 81,525 35,904 (46) 12,411 (11) 33,210 (53)
  Tryptophan synthase beta subunit-like PLP-dependent enzymes 18 6,296 2,821 (36)    2,503 (53)
  UDP-Glycosyltransferase/glycogen phosphorylase 16 6,976 3,324 (44)    2,562 (56)
α + β proteins Acyl-CoA N-acyltransferases (Nat) 63 11,104 3,872 (57) 3,376 (33) 3,856 (74)
  Cysteine proteinases 34 9,122 3,027 (44)    4,248 (64)
  Ferredoxin-like 174 19,761 6,048 (57) 5,212 (36) 8,501 (73)
  Protein kinase-like (PK-like) 57 16,585 6,566 (44) 2,783 (40) 7,236 (65)
  Thioesterase/thiol ester dehydrase-isomerase 38 5,319    2,090 (43)   
  Zincin-like 33 9,786 4,555 (44)    4,099 (63)
All β proteins 6-bladed beta-propeller 18 6,195    2,785 (23) 3,083 (60)
  Concanavalin A-like lectins/glucanases 60 13,290    6,242 (32) 6,122 (67)
  Double-stranded beta-helix 68 15,315    5,425 (27) 7,075 (62)
  Galactose-binding domain-like 29 4,522    2,191 (39) 2,077 (71)
  Immunoglobulin-like beta-sandwich 117 13,954    6,176 (47) 7,225 (78)
  Lipocalins 41 6,422    3,120 (45) 2,371 (75)
  OB-fold 58 7,072    2,665 (41) 3,418 (75)
  PH domain-like barrel 54 7,041    2,434 (42) 3,393 (83)
  Single-stranded right-handed beta-helix 27 8,817    3,600 (31) 4,484 (59)
  Trypsin-like serine proteases 41 9,275    3,290 (29) 4,827 (63)
  1. 1. NE j : The number of PDB entries in the fold, j.
  2. 2. N j : The number of residues in the fold, j.
  3. 3. N α j : The number of residues of α-helices in the fold, j.
  4. 4. N β j : The number of residues of β-strands in the fold, j.
  5. 5. N O j : The number of residues of other conformation in the fold, j.
  6. 6. f αexp j : Fraction (%) of exposed residues in α-helices in the fold, j.
  7. 7. f βexp j : Fraction (%) of exposed residues in β-strands in the fold, j.
  8. 8. f Oexp j : Fraction (%) of exposed residues in other conformation in the fold, j.