Folds:

1. a.1: Globin-like [46457] (2 superfamilies) core: 6 helices; folded leaf, partly opened

2. a.2: Long alpha-hairpin [46556] (11 superfamilies) 2 helices; antiparallel hairpin, left-handed twist

3. a.3: Cytochrome c [46625] (1 superfamily) core: 3 helices; folded leaf, opened

4. a.4: DNA/RNA-binding 3-helical bundle [46688] (12 superfamilies) core: 3-helices; bundle, closed or partly opened, right-handed twist; up-and down

5. a.5: RuvA C-terminal domain-like [46928] (6 superfamilies) 3 helices; bundle, right-handed twist

6. a.6: Putative DNA-binding domain [46954] (1 superfamily) core: 3 helices; architecture is similar to that of the "winged helix" fold but topology is different

7. a.7: Spectrin repeat-like [46965] (8 superfamilies) 3 helices; bundle, closed, left-handed twist; up-and-down

8. a.8: immunoglobulin/albumin-binding domain-like [46996] (3 superfamilies) 3 helices; bundle, closed, left-handed twist; up-and-down; mirror topology to the spectrin-like fold

9. a.9: Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex [47004] (1 superfamily) 3 helices; bundle, closed, right-handed twist; up-and-down

10. a.10: Protozoan pheromone proteins [47013] (1 superfamily) 3 helices; bundle, closed, left-handed twist, up-and-down

11. a.11: Acyl-CoA binding protein-like [47026] (2 superfamilies) core: 3 helices; bundle, closed, left-handed twist; up-and-down

12. a.12: Kix domain of CBP (creb binding protein) [47039] (1 superfamily) 3 helices; bundle, partly opened

13. a.13: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1 [47044] (1 superfamily) 3 helices, the first one is shorter than the other two; bundle, partly opened

14. a.14: Thermostable subdomain from chicken villin headpiece [47049] (1 superfamily) 3 short helices; irregular array

15. a.15: TAF(II)230 TBP-binding fragment [47054] (1 superfamily) 3 short helices; irregular array

16. a.16: S15/NS1 RNA-binding domain [47059] (1 superfamily) 3 helices; irregular array

17. a.17: p8-MTCP1 [47071] (1 superfamily) 3 helices; irregular array; disulfide-rich

18. a.18: T4 endonuclease V [47076] (1 superfamily) 3 helices; irregular array

19. a.19: Fertilization protein [47081] (1 superfamily) core: 3 helices; bundle, closed, right-handed twist; up-and-down

20. a.20: PGBD-like [47089] (1 superfamily) core: 3 helices; bundle, closed, left-handed twist; parallel

21. a.21: HMG-box [47094] (1 superfamily) 3 helices; irregular array

22. a.22: Histone-fold [47112] (1 superfamily) core: 3 helices; long middle helix is flanked at each end with shorter ones

23. a.23: Open three-helical up-and-down bundle [47143] (5 superfamilies) core: 3 helices; bundle, open

24. a.24: Four-helical up-and-down bundle [47161] (16 superfamilies) core: 4 helices; bundle, closed or partly opened, left-handed twist; up-and-down

25. a.25: Ferritin-like [47239] (2 superfamilies) core: 4 helices; bundle, closed, left-handed twist; 1 crossover connection

26. a.26: 4-helical cytokines [47265] (1 superfamily) core: 4 helices; bundle, closed; left-handed twist; 2 crossover connections

27. a.27: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases [47322] (1 superfamily) core: 4 helices; bundle; one loop crosses over one side of the bundle

28. a.28: Acyl carrier protein-like [47335] (3 superfamilies) 4 helices, bundle; helix 3 is shorter than others; up-and-down

29. a.29: Bromodomain-like [47363] (4 superfamilies) 4 helices; bundle; minor mirror variant of up-and-down topology

30. a.30: ROP-like [47379] (2 superfamilies) 4 helices; dimer of identical alpha-hairpin subunits; bundle, closed, left-handed twist

31. a.31: Dimerization-anchoring domain of cAMP-dependent type II PK regulatory subunit [47390] (1 superfamily) 4 helices; bundle, closed, right-handed twist

32. a.32: Transcription factor IIA (TFIIA), alpha-helical domain [47395] (1 superfamily) 4 helices; bundle, closed, right-handed twist

33. a.33: Ectatomin subunits [47400] (1 superfamily) 4 helices; bundle, closed, left-handed twist

34. a.34: SinR repressor dimerisation domain-like [47405] (1 superfamily) 4 helices; bundle, closed, right-handed twist

35. a.35: lambda repressor-like DNA-binding domains [47412] (1 superfamily) core: 4 helices; folded leaf, closed

36. a.36: Signal peptide-binding domain [47445] (1 superfamily) 4 helices; orthogonal array

37. a.37: A DNA-binding domain in eukaryotic transcription factors [47453] (1 superfamily) 4 helices; the long C-terminal helix protrudes from the domain and binds to DNA

38. a.38: Helix-loop-helix DNA-binding domain [47458] (1 superfamily) 4-helices; bundle, closed, left-handed twist; 2 crossover connections

39. a.39: EF Hand-like [47472] (4 superfamilies) core: 4 helices; array of 2 hairpins, opened

40. a.40: CH domain-like [47575] (2 superfamilies) core: 4 helices: bundle

41. a.41: Domain of poly(ADP-ribose) polymerase [47586] (1 superfamily) core: 4 helices: bundle; unusual topology

42. a.42: MDM2 [47591] (1 superfamily) core: 4 helices: open bundle; capped by two small 3-stranded beta-sheets duplication: consists of two structural repeats

43. a.43: Met repressor-like [47597] (1 superfamily) core: 4 helices; array of 2 hairpins, opened

44. a.44: Disulphide-bond formation facilitator (DSBA), insertion domain [47609] (1 superfamily) 4 helices; bundle, partly opened, left-handed twist; up-and-down

45. a.45: Glutathione S-transferase (GST), C-terminal domain [47615] (1 superfamily) core: 4 helices; bundle, closed, left-handed twist; right-handed superhelix

46. a.46: Methionine synthase domain-like [47643] (2 superfamilies) 4 helices; bundle, left-handed twist; right-handed superhelix

47. a.47: STAT-like [47654] (2 superfamilies) 4 long helices; bundle, left-handed twist (coiled colil); right-handed superhelix

48. a.48: N-cbl like [47667] (3 superfamilies) 4 helices; bundle, left-handed twist; left-handed superhelix

49. a.49: C-terminal domain of B transposition protein [47680] (1 superfamily) 4 helices; irregular array

50. a.50: Anaphylotoxins (complement system) [47685] (1 superfamily) 4 helices; irregular array, disulphide-linked

51. a.51: Cytochrome c oxidase subunit h [47693] (1 superfamily) 4 helices; irregular array, disulphide-linked

52. a.52: Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin [47698] (1 superfamily) 4 helices; folded leaf; right-handed superhelix

53. a.53: p53 tetramerization domain [47718] (1 superfamily) core: 4 helices; bundle

54. a.54: Domain of early E2A DNA-binding protein, ADDBP [47723] (1 superfamily) 4 helices; bundle, partly opened

55. a.55: IHF-like DNA-binding proteins [47728] (1 superfamily) core: 4 helices; bundle, partly opened, capped with a beta-sheet

56. a.56: CO dehydrogenase ISP C-domain like [47740] (1 superfamily) core: 4 helices, bundle

57. a.57: Protein HNS-dependent expression A; HdeA [47751] (1 superfamily) 4 helices; the three last helices form a bundle similar to that of the RuvA C-domain

58. a.58: Chemotaxis receptor methyltransferase CheR, N-terminal domain [47756] (1 superfamily) 4 helices; an orthogonal array

59. a.59: PAH2 domain [47761] (1 superfamily) 4 helices; open up-and-down bundle; binds alpa-helical peptides

60. a.60: SAM domain-like [47768] (13 superfamilies) 4-5 helices; bundle of two orthogonally packed alpha-hairpins; involved in the interactions with DNA and proteins

61. a.61: Retroviral matrix proteins [47835] (1 superfamily) 4-5 helices; right-handed superhelix

62. a.62: Hepatitis B viral capsid (hbcag) [47851] (1 superfamily) 5 helices; array; two long helices form a hairpin that dimerises into a 4-helical bundle

63. a.63: Apolipophorin-III [47856] (1 superfamily) 5 helices; bundle, closed, left-handed twist

64. a.64: Saposin-like [47861] (2 superfamilies) 5 helices; folded leaf, closed

65. a.65: Annexin [47873] (1 superfamily) 5 helices; folded leaf, closed

66. a.66: Transducin (alpha subunit), insertion domain [47894] (1 superfamily) 5 helices; folded leaf

67. a.68: Wiscott-Aldrich syndrome protein, WASP, C-terminal domain [47911] (1 superfamily) 5 helices; irregular array; left-handed superhelix

68. a.69: Left-handed superhelix [47916] (3 superfamilies) core: 4-5 helices; bundle; left-handed superhelix

69. a.70: N-terminal domain of the delta subunit of the F1F0-ATP synthase [47927] (1 superfamily) core: 5 helices; bundle

70. a.71: ERP29 C domain-like [47932] (2 superfamilies) 5 helices; bundle

71. a.72: Functional domain of the splicing factor Prp18 [47937] (1 superfamily) core: 5 helices; bundle

72. a.73: Retrovirus capsid protein, N-terminal core domain [47942] (1 superfamily) core: 5 helices; bundle

73. a.74: Cyclin-like [47953] (1 superfamily) core: 5 helices; one helix is surrounded by the others

74. a.75: Ribosomal protein S7 [47972] (1 superfamily) core: 5 helices; contains one more helix and a beta-hairpin outside the core

75. a.76: Iron-dependent represor protein, dimerization domain [47978] (1 superfamily) 6 helices, homodimer of 3-helical domains

76. a.77: DEATH domain [47985] (1 superfamily) 6 helices: closed bundle; greek-key; internal pseudo twofold symmetry

77. a.78: Fatty acid responsive transcription factor FadR, C-terminal domain [48007] (1 superfamily) core: 6 helices: closed bundle; greek-key; internal pseudo twofold symmetry

78. a.79: Antitermination factor NusB [48012] (1 superfamily) 6 helices: bundle; one central helix is surrounded by 5 others

79. a.80: DNA polymerase III clamp loader subunits, C-terminal domain [48018] (1 superfamily) core: 5 helices: bundle

80. a.81: N-terminal domain of DnaB helicase [48023] (1 superfamily) 6 helices: array

81. a.83: Guanido kinase N-terminal domain [48033] (1 superfamily) irregular array of 6 short helices

82. a.84: Scaffolding protein gpD of bacteriophage procapsid [48044] (1 superfamily) core: 6 helices; one central helix is surrounded by 5 others

83. a.85: Hemocyanin, N-terminal domain [48049] (1 superfamily) 6 helices; bundle; one central helix is surrounded by 5 others

84. a.86: Di-copper centre-containing domain [48055] (1 superfamily) multihelical

85. a.87: DBL homology domain (DH-domain) [48064] (1 superfamily) multihelical; core: 5-helical bundle

86. a.88: LigA subunit of an aromatic-ring-opening dioxygenase LigAB [48075] (1 superfamily) multihelical; contains compact array of 6 short helices

87. a.89: Methyl-coenzyme M reductase alpha and beta chain C-terminal domain [48080] (1 superfamily) multihelical bundle; contains buried central helix

88. a.90: Transcription factor STAT-4 N-domain [48091] (1 superfamily) multihelical; can be divided into two subdomains

89. a.91: Regulator of G-protein signalling, RGS [48096] (1 superfamily) multihelical; consists of two all-alpha subdomains contains a 4-helical bundle with left-handed twist and up-and-down topology

90. a.92: Carbamoyl phosphate synthetase, large subunit connection domain [48107] (1 superfamily) multihelical; consists of two all-alpha subdomains possible duplication: subdomains have similar topologies

91. a.93: Heme-dependent peroxidases [48112] (1 superfamily) multihelical; consists of two all-alpha domains

92. a.94: Ribosomal protein L19 (L19e) [48139] (1 superfamily) multihelical; consists of two different 3-helical domains connected by a long, partly helical linker

93. a.95: Influenza virus matrix protein M1 [48144] (1 superfamily) multihelical; consists of two different all-alpha subdomains, 4 helices each

94. a.96: DNA-glycosylase [48149] (1 superfamily) multihelical; consists of two all-alpha domains

95. a.97: An anticodon-binding domain of class I aminoacyl-tRNA synthetases [48162] (1 superfamily) multihelical; consists of two all-alpha domains

96. a.98: R1 subunit of ribonucleotide reductase, N-terminal domain [48167] (1 superfamily) multihelical consists of two all-alpha subdomains subdomain 1 (residues 10-100) is a 4-helical bundle

97. a.99: Cryptochrome/photolyase FAD-binding domain [48172] (1 superfamily) multihelical; consists of two all-alpha subdomains

98. a.100: 6-phosphogluconate dehydrogenase C-terminal domain-like [48178] (1 superfamily) multihelical; common core is formed around two long antiparallel helices related by (pseudo) twofold symmetry

99. a.101: Uteroglobin-like [48200] (1 superfamily) multihelical

100. a.102: alpha/alpha toroid [48207] (5 superfamilies) multihelical; up to seven alpha-hairpins are arranged in closed circular array

101. a.103: Citrate synthase [48255] (1 superfamily) multihelical; consists of two all-alpha domains

102. a.104: Cytochrome P450 [48263] (1 superfamily) multihelical

103. a.105: FIS-like [48282] (1 superfamily) multihelical; intertwined dimer of identical 4-helical subunits

104. a.108: Ribosomal protein L7/12, oligomerisation (N-terminal) domain [48299] (1 superfamily) multihelical; intertwined tetramer

105. a.109: Class II MHC-associated invariant chain ectoplasmic trimerization domain [48304] (1 superfamily) multihelical; intertwined trimer of identical 3-helical subunits

106. a.110: Aldehyde ferredoxin oxidoreductase, C-terminal domains [48309] (1 superfamily) multihelical; consists of two all-alpha domains

107. a.111: Acid phosphatase/Vanadium-dependent haloperoxidase [48316] (1 superfamily) multihelical; core: 5-helical bundle; binds cofactor at the beginning of third helix

108. a.113: DNA repair protein MutS, domain III [48333] (1 superfamily) multihelical; consists of 2 all-alpha subdomains

109. a.114: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain [48339] (1 superfamily) multihelical; bundle of longer and shorter helices

110. a.115: A virus capsid protein alpha-helical domain [48344] (1 superfamily) multihelical; three-helical bundle in the core is surrounded by non-conserved helices

111. a.116: GTPase activation domain, GAP [48349] (1 superfamily) multihelical

112. a.117: Ras GEF [48365] (1 superfamily) multihelical

113. a.118: alpha-alpha superhelix [48370] (17 superfamilies) multihelical; 2 (curved) layers: alpha/alpha; right-handed superhelix

114. a.119: Lipoxigenase [48483] (1 superfamily) multihelical large nearly all-alpha domain

115. a.120: gene 59 helicase assembly protein [48492] (1 superfamily) multihelical; consists of two all-alpha subdomains

116. a.121: Tetracyclin repressor-like, C-terminal domain [48497] (1 superfamily) multihelical; interlocked (homo)dimer

117. a.123: Nuclear receptor ligand-binding domain [48507] (1 superfamily) multihelical; 3 layers or orthogonally packed helices

118. a.124: Phospholipase C/P1 nuclease [48536] (1 superfamily) multihelical

119. a.125: PDEase [48546] (1 superfamily) multihelical; can be divided into three subdomains

120. a.126: Serum albumin-like [48551] (1 superfamily) multihelical; one domain consists of two similar disulphide-linked subdomains

121. a.127: L-aspartase-like [48556] (1 superfamily) multihelical, consists of three all-alpha domains

122. a.128: Terpenoid synthases [48575] (1 superfamily) multihelical; core: 8 helices (C-J) are arranged in 2 parallel layers

123. a.129: GroEL equatorial domain-like [48591] (1 superfamily) multihelical; 8 helices arranged in 2 parallel layers

124. a.130: Chorismate mutase II [48599] (1 superfamily) multihelical; core: 6 helices, bundle

125. a.131: Peridinin-chlorophyll protein [48607] (1 superfamily) multihelical: forms a boat-shaped protein shell around cofactors

126. a.132: Heme oxygenase [48612] (1 superfamily) multihelical; bundle

127. a.133: Phospholipase A2, PLA2 [48618] (1 superfamily) common core: 2 helices, disulphide-linked, and a calcium-binding loop

128. a.134: Fungal elicitin [48646] (1 superfamily) 5 helices: irregular disulfide-linked array; also contains a small beta-hairpin

129. a.135: Tetraspanin [48651] (1 superfamily) 5 helices: irregular disulfide-linked array; form homodimer

130. a.136: Repressor of bacterial conjugation FinO [48656] (1 superfamily) 6 helices: irregular non-globular array; also contains two small b-hairpins

131. a.137: Non-globular all-alpha subunits of globular proteins [48661] (9 superfamilies) not a true fold

132. a.138: Multiheme cytochromes [48694] (1 superfamily) variable number of helices and little beta structure; not a true fold

133. a.139: Type I dockerin domain [63445] (1 superfamily) tandem repeat of two calcium-binding loop-helix motifs, distinct from the EF-hand

134. a.140: LEM/SAP HeH motif [63450] (4 superfamilies) helix-extended loop-helix; parallel helices

135. a.141: Frizzled cystein-rich domain [63500] (1 superfamily) Core: 3 helices; irregular array; disulfide-rich

136. a.142: PTS-regulatory domain, PRD [63519] (1 superfamily) core: 4 helices; bundle, closed, right-handed twist; 1 crossover connection

137. a.143: RNA polymerase omega subunit [63561] (1 superfamily) 4 helices; irregular array

138. a.144: PABP domain-like [63569] (2 superfamilies) 4 helices; an orthogonal array

139. a.145: Flagellar transcriptional activator FlhD [63591] (1 superfamily) multihelical; forms intertwined dimer of identical 5-helical subunits

140. a.146: Telomeric repeat binding factor (TRF) dimerisation domain [63599] (1 superfamily) multihelical; can be divided into an alpha-alpha superhelix domain and a long alpha-haipin dimerisation domain

141. a.147: Bcr-Abl oncoprotein oligomerization domain [69035] (1 superfamily) core: 4 long helices; bundle

142. a.148: Arp2/3 complex 21 kDa subunit ARPC3 [69059] (1 superfamily) 5 helices; one helix is surrounded by the others

143. a.149: RNase III endonuclease catalytic domain [69064] (1 superfamily) core: 5 helices; one helix is surrounded by the others

144. a.150: Anti-sigma factor AsiA [69069] (1 superfamily) core: 5 helices: orthogonal array

145. a.151: Glutamyl tRNA-reductase dimerization domain [69074] (1 superfamily) 6 helices, homodimer of 3-helical domains

146. a.152: Antioxidant defence protein AhpD [69117] (1 superfamily) multihelical; bundle

147. a.153: Nuclear receptor coactivator interlocking domain [69124] (1 superfamily) 3 helices, non-globular array; forms interlocked heterodimers with its targets

148. a.154: Variable surface antigen VlsE [74747] (1 superfamily) multihelical; consists of two all-alpha subdomains; contains a 4-helical bundle with left-handed twist and up-and-down topology

149. a.155: H-NS histone-like proteins [81274] (1 superfamily) multihelical oligomeric protein; structure of whole subunit is not known yet but are probably composed of three different domains

150. a.156: S13-like H2TH domain [81297] (1 superfamily) core: 3-4 helices

151. a.157: Skp1 dimerisation domain-like [81384] (1 superfamily) multihelical; interlocked heterodimer with F-box proteins

152. a.158: F-box domain [81385] (1 superfamily) multihelical; interlocked heterodimer with the Skp1 dimerisation domain

153. a.159: Another 3-helical bundle [81602] (2 superfamilies) topologically similar to the DNA/RNA-binding bundles; distinct packing

154. a.160: Poly(A) polymerase, middle domain [81632] (1 superfamily) core: 5-helical bundle; up-and-down; right-handed twist

155. a.161: beta-catenin-interacting protein ICAT [81729] (1 superfamily) core: 3 helices; irregular array

156. a.162: Pre-protein croslinking domain of SecA [81766] (1 superfamily) core: 4 helices: bundle; flanked by two short beta-hairpins duplication: consists of two structural repeats

157. a.163: Crustacean CHH/MIH/GIH neurohormone [81777] (1 superfamily) 4 helices; irregular array, disulphide-linked

158. a.164: C-terminal domain of DFF45/ICAD (DFF-C domain) [81782] (1 superfamily) 4 helices; folded leaf; right-handed superhelix

159. a.165: Myosin phosphatase inhibitor 17kDa protein, CPI-17 [81789] (1 superfamily) 4 helices; open up-and-down bundle; flexible N-terminal tail

160. a.166: RuBisCo LSMT C-terminal, substrate-binding domain [81821] (1 superfamily) multihelical; irregular array of long and short helices

161. a.167: Porin chaperone SurA, peptide-binding domain [81826] (1 superfamily) multihelical; irregular array of long and short helices

162. a.168: GEF domain of SopE toxin [81831] (1 superfamily) multihelical; consists of two all-alpha subdomains each containing a 3-helical bundle with right-handed twist

163. a.169: BEACH domain [81836] (1 superfamily) multihelical, complex architecture

164. a.170: BRCA2 helical domain [81871] (1 superfamily) multihelical; contains a 3-helical bundle surrounded by several shorter helices

165. a.171: BRCA2 tower domain [81877] (1 superfamily) multihelical; contains a 3-helical Hin recombinase-like subdomain and two long dimerisation helices

166. a.172: Helical scaffold and wing domains of SecA [81885] (1 superfamily) multihelical; consists of 2 all-alpha subdomains

167. a.173: tRNA CCA-adding enzyme, C-terminal domains [81890] (1 superfamily) multihelical; can be divided into three subdomains (neck, body and tail)

168. a.174: Double Clp-N motif [81922] (1 superfamily) multihelical; array

169. a.175: Orange carotenoid protein, N-terminal domain [81929] (1 superfamily) multihelical; array

170. a.176: N-terminal domain of bifunctional PutA protein [81934] (1 superfamily) multihelical; array

171. a.177: Sigma2 domain of RNA polymerase sigma factors [88945] (1 superfamily) multihelical; consists of a conserved 4-helical core and a variable insert subdomain

172. a.178: Soluble domain of poliovirus core protein 3a [89042] (1 superfamily) 4 helices; bundle, closed, right-handed twist

173. a.179: Replisome organizer (g39p helicase loader/inhibitor protein) [89063] (1 superfamily) 4 helices; bundle, right-handed twist; left-handed superhelix

174. a.180: N-terminal, cytoplasmic domain of anti-sigmaE factor RseA [89068] (1 superfamily) 4 helices; irregular array

175. a.181: Antibiotic binding domain of TipA-like multidrug resistance regulators [89081] (1 superfamily) 5 helices: orthogonal array

176. a.182: GatB/YqeY domain [89094] (1 superfamily) multihelical; consists of two different helical-bundles (4-helical and 3-helical)

177. a.183: Nop domain [89123] (1 superfamily) multihelical; array of longer and shorter helices; contains an alpha-hairpin dimerisation subdomain

178. a.184: TorA specific chaperone TorD [89154] (1 superfamily) multihelical; bundle

179. a.185: Gametocyte protein Pfg27 [89161] (1 superfamily) multihelical; bundle

More info for Class a: All alpha proteins

Timeline for Class a: All alpha proteins:

• Class a: All alpha proteins first appeared (with stable ids) in SCOP 1.55
  
• Class a: All alpha proteins appears in SCOP 1.63
  
• Class a: All alpha proteins appears in SCOP 1.67
  
• Class a: All alpha proteins appears in the current release, SCOPe 2.08