SCOPe Funding Alert: SCOPe support from the NIH ended in April 2016. John-Marc Chandonia is the primary maintainer and has continued to develop SCOPe using vacation time. Three proposals to the NIH for continued funding have been unsuccessful. If our current NIH proposal is not funded, SCOPe will shut down permanently in Summer 2017 as Dr. Chandonia will need to seek a new position.

Lineage for Class g: Small proteins

  1. Root: SCOPe 2.05
  2. 1959977Class g: Small proteins [56992] (92 folds)

Folds:

  1. 1959978g.1: Insulin-like [56993] (1 superfamily)
    nearly all-alpha
    can be classified as disulfide-rich
  2. 1960234g.2: Toxic hairpin [57006] (4 superfamilies)
    disulfide crosslinked alpha-helical hairpin
  3. 1960255g.3: Knottins (small inhibitors, toxins, lectins) [57015] (19 superfamilies)
    disulfide-bound fold; contains beta-hairpin with two adjacent disulfides
  4. 1962022g.4: PMP inhibitors [57282] (1 superfamily)
    disulfide-rich fold; all-beta: 3 antiparallel strands
  5. 1962045g.5: Midkine [57287] (1 superfamily)
    disulfide-rich fold; all-beta: 3 antiparallel strands
  6. 1962055g.6: Amb V allergen [57295] (1 superfamily)
    disulfide-rich; alpha+beta: 3 antiparallel strands followed by a short alpha helix
  7. 1962063g.7: Snake toxin-like [57301] (1 superfamily)
    disulfide-rich fold: nearly all-beta
  8. 1962426g.8: BPTI-like [57361] (1 superfamily)
    disulfide-rich alpha+beta fold
  9. 1962752g.9: Defensin-like [57391] (1 superfamily)
    Disulfide-rich fold, nearly all-beta
  10. 1962914g.10: Hairpin loop containing domain-like [57413] (1 superfamily)
    alpha+beta fold with two crossing loops
  11. 1962994g.11: Neurotoxin III (ATX III) [57418] (1 superfamily)
    disulfide-rich fold
  12. 1963000g.12: LDL receptor-like module [57423] (1 superfamily)
    disulfide-rich calcium-binding fold
  13. 1963045g.13: Crambin-like [57428] (1 superfamily)
    disulfide-rich alpha+beta fold
  14. 1963115g.14: Kringle-like [57439] (1 superfamily)
    disulfide-rich fold; nearly all-beta
  15. 1963333g.16: Trefoil/Plexin domain-like [57491] (3 superfamilies)
    disulfide-rich fold; common core is alpha+beta with two conserved disulfides
  16. 1963384g.17: Cystine-knot cytokines [57500] (1 superfamily)
    disulfide-rich fold; common core is all-beta
  17. 1963726g.18: Complement control module/SCR domain [57534] (1 superfamily)
    disulfide-rich all-beta fold
  18. 1964007g.19: Crisp domain-like [57545] (1 superfamily)
    disulfide-rich all-alpha fold
  19. 1964049g.20: Blood coagulation inhibitor (disintegrin) [57551] (1 superfamily)
    small disulfide-rich
  20. 1964111g.21: Methylamine dehydrogenase, L chain [57560] (1 superfamily)
    disulfide-rich; nearly all-beta
  21. 1964270g.22: Serine protease inhibitors [57566] (1 superfamily)
    disulfide-rich; nearly all-beta
  22. 1964296g.23: TB module/8-cys domain [57580] (1 superfamily)
    disulfide-rich; alpha+beta
  23. 1964311g.24: TNF receptor-like [57585] (1 superfamily)
    duplication: consists of three similar disulfide-rich domains
  24. 1964464g.25: Heparin-binding domain from vascular endothelial growth factor [57592] (1 superfamily)
    duplication: consists of two similar disulfide-rich domains, alpha+beta
  25. 1964472g.26: Antifungal protein (AGAFP) [57597] (1 superfamily)
    disulfide-rich; all-beta: open barrel, 5 strands; OB-fold-like
  26. 1964478g.27: FnI-like domain [57602] (1 superfamily)
    disulfide-rich, all-beta
  27. 1964542g.28: Thyroglobulin type-1 domain [57609] (1 superfamily)
    disulfide-rich, alpha+beta
  28. 1964568g.29: Type X cellulose binding domain, CBDX [57614] (1 superfamily)
    disulfide-rich, alpha+beta
  29. 1964575g.30: Carboxypeptidase inhibitor [57619] (1 superfamily)
    disulfide-rich, alpha+beta
  30. 1964590g.31: Invertebrate chitin-binding proteins [57624] (1 superfamily)
    disulfide-rich
  31. 1964600g.32: GLA-domain [57629] (1 superfamily)
    Calcium ion-bound
  32. 1964676g.33: Cholecystokinin A receptor, N-domain [57641] (1 superfamily)
    a few helical turns and a disulfide-crosslinked loop
  33. 1964682g.34: HIV-1 VPU cytoplasmic domain [57646] (1 superfamily)
    a few helical turns assembled without a hydrophobic core?
  34. 1964693g.35: HIPIP (high potential iron protein) [57651] (1 superfamily)
    folds around 4Fe-4S cluster
  35. 1964738g.36: Ferredoxin thioredoxin reductase (FTR), catalytic beta chain [57661] (1 superfamily)
    folds around 4Fe-4S cluster
  36. 1964751g.37: beta-beta-alpha zinc fingers [57666] (1 superfamily)
    simple fold, consisting of the N-terminal beta-hairpin and C-terminal alpha-helical region; each part provides two zinc-coordinating residues with the observed sequences including C2H2, C2HC and CHHC
  37. 1965134g.38: Zn2/Cys6 DNA-binding domain [57700] (1 superfamily)
    all-alpha dimetal(zinc)-bound fold
  38. 1965176g.39: Glucocorticoid receptor-like (DNA-binding domain) [57715] (1 superfamily)
    alpha+beta metal(zinc)-bound fold
  39. 1965775g.40: Retrovirus zinc finger-like domains [57755] (1 superfamily)
    metal(zinc)-bound fold
  40. 1965821g.41: Rubredoxin-like [57769] (17 superfamilies)
    metal(zinc or iron)-bound fold; sequence contains two CX(n)C motifs, in most cases n = 2
  41. 1966858g.42: Ribosomal protein L36 [57839] (1 superfamily)
    zinc-bound beta-ribbon motif
  42. 1966908g.43: B-box zinc-binding domain [57844] (1 superfamily)
    zinc-bound alpha+beta motif
  43. 1966943g.44: RING/U-box [57849] (1 superfamily)
    dimetal(zinc)-bound alpha+beta motif; structurally diverse
  44. 1967089g.45: ArfGap/RecO-like zinc finger [57862] (1 superfamily)
    zinc-bound alpha+beta motif
  45. 1967109g.46: Metallothionein [57867] (1 superfamily)
    metal(iron)-bound fold
    duplication: consists of clear structural/sequence repeats
  46. 1967153g.47: Zinc domain conserved in yeast copper-regulated transcription factors [57878] (1 superfamily)
    metal(zinc)-bound alpha+beta fold
  47. 1967159g.48: Ada DNA repair protein, N-terminal domain (N-Ada 10) [57883] (1 superfamily)
    metal(zinc)-bound alpha+beta fold
  48. 1967166g.49: Cysteine-rich domain [57888] (1 superfamily)
    dimetal(zinc)-bound alpha+beta fold
  49. 1967224g.50: FYVE/PHD zinc finger [57902] (1 superfamily)
    dimetal(zinc)-bound alpha+beta fold
  50. 1967362g.51: Zn-binding domains of ADDBP [57916] (1 superfamily)
    metal(zinc)-bound alpha+beta fold
  51. 1967381g.52: Inhibitor of apoptosis (IAP) repeat [57923] (1 superfamily)
    metal(zinc)-bound alpha+beta fold
  52. 1967597g.53: TAZ domain [57932] (1 superfamily)
    all-alpha fold; Zn-binding sites are in the loops connecting helices
  53. 1967619g.54: DnaJ/Hsp40 cysteine-rich domain [57937] (1 superfamily)
    metal(zinc)-bound extended beta-hairpin fold
  54. 1967628g.55: Cellulose docking domain, dockering [64570] (1 superfamily)
    disulfide-rich, alpha+beta
  55. 1967635g.58: Pheromone ER-23 [69963] (1 superfamily)
    disulfide-rich, all-alpha
  56. 1967641g.59: Zinc-binding domain of translation initiation factor 2 beta [75688] (1 superfamily)
    zinc-bound beta-ribbon motif
  57. 1967653g.60: TSP-1 type 1 repeat [82894] (1 superfamily)
    disulfide-rich fold; all-beta: 3 antiparallel strands
  58. 1967667g.61: Apical membrane antigen 1 [82909] (1 superfamily)
    disulfide-rich, alpha+beta
  59. 1967675g.62: Cysteine-rich DNA binding domain, (DM domain) [82926] (1 superfamily)
    alpha-helical fold with two Zn-binding sites
  60. 1967681g.63: Mollusk pheromone [90182] (1 superfamily)
    disulfide-rich; all-alpha
  61. 1967687g.64: Somatomedin B domain [90187] (1 superfamily)
    disulfide-rich
  62. 1967698g.65: Notch domain [90192] (1 superfamily)
    disulfide-rich; all-alpha; calcium-binding
  63. 1967704g.66: CCCH zinc finger [90228] (1 superfamily)
    metal(zinc)-bound alpha+beta fold
  64. 1967721g.67: Zinc finger domain of DNA polymerase-alpha [90233] (1 superfamily)
    Zn-binding, all-alpha fold
  65. 1967729g.68: Kazal-type serine protease inhibitors [100894] (1 superfamily)
  66. 1967854g.69: Plant proteinase inhibitors [100896] (1 superfamily)
    disulfide-rich small alpha+beta fold; topological similarity to the Ovomucoid domain III
  67. 1967884g.70: Necrosis inducing protein 1, NIP1 [103579] (1 superfamily)
    disulfide-rich fold; all-beta; duplication: contains two structural repeats
  68. 1967890g.71: Mini-collagen I, C-terminal domain [103588] (1 superfamily)
    disulfide-rich
  69. 1967897g.72: SBT domain [103611] (1 superfamily)
    consist of two different zn-binding subdomains, each subdomain resembles a distorted glucocorticoid receptor-like fold
  70. 1967909g.73: CCHHC domain [103636] (1 superfamily)
    metal(zinc)-bound fold
  71. 1967915g.74: Sec-C motif [103641] (1 superfamily)
    metal(zinc)-bound fold
  72. 1967930g.75: TSP type-3 repeat [103646] (1 superfamily)
    metal(calcium)-bound fold
  73. 1967936g.76: Hormone receptor domain [111417] (1 superfamily)
    disulfide-rich all-beta fold; contains beta sandwich of 5 strands
  74. 1967945g.77: Resistin [111422] (1 superfamily)
    disulfide-rich six-stranded beta-sandwich; jelly-roll
  75. 1967964g.78: YAP1 redox domain [111429] (1 superfamily)
    bipartite cysteine-rich all-alpha domain; a single helix in the N-terminal part (chain A) is linked by disulfides to the C-terminal part (chain B) [3-helical bundle of the RuvA C-terminal domain-like fold (46928)
  76. 1967970g.79: WRKY DNA-binding domain [118289] (1 superfamily)
    zinc-bound 4-stranded meander beta-sheet, distinct from the beta-ribbon motifs
  77. 1967981g.80: AN1-like Zinc finger [118309] (1 superfamily)
    dimetal(zinc)-bound alpha+beta fold; partial similarity to the Cysteine-rich domain fold (57888)
  78. 1968002g.81: HSP33 redox switch-like [118351] (1 superfamily)
    alpha+beta zinc-binding domain; alpha(2)-beta(2)-alpha
  79. 1968014g.82: Expressed protein At2g23090/F21P24.15 [118358] (1 superfamily)
    not assigned; partly disordered
  80. 1968020g.83: Tim10-like [144121] (1 superfamily)
    alpha-hairpin crosslinked by two disulfides; assembles into a heterohexameric ring-like structure
  81. 1968037g.84: Cysteine zipper [144128] (1 superfamily)
    string of helices that contain cysteines at almost every turn; folds upon itself and is crosslnked by multiple disulfides
  82. 1968043g.85: HIT/MYND zinc finger-like [144231] (1 superfamily)
    dimetal(zinc)-bound alpha+beta fold; structural similarity to members of the Cysteine-rich domain fold (57888)
  83. 1968065g.86: Coronavirus NSP10-like [144245] (1 superfamily)
    binds two zinc ion per subunit; forms a dodecameric shell
  84. 1968125g.87: Viral leader polypeptide zinc finger [144250] (1 superfamily)
    consists of small beta-hairpin with CxH motif and short helix with CxxC motif
  85. 1968131g.88: Intrinsically disordered proteins [144255] (2 superfamilies)
    not a true fold
  86. 1968149g.89: CHY zinc finger-like [161218] (1 superfamily)
    trimetal-bound fold; integration of HIT/MYND-like and rubredoxin-like fingers
  87. 1968158g.90: E6 C-terminal domain-like [161228] (1 superfamily)
    alpha+beta zinc-binding fold with topological similarity to the fold of lambda cro protein
  88. 1968169g.91: E7 C-terminal domain-like [161233] (1 superfamily)
    alpha+beta zinc-binding domain; beta(2)-alpha(2)
  89. 1968180g.92: T-antigen specific domain-like [161239] (1 superfamily)
    all-alpha zinc-binding domain; there are two zinc ion-binding sites with a common CxCxxC motif but different fourth ligands
  90. 1968187g.93: Zinc hairpin stack [161244] (1 superfamily)
    stack of beta-hairpins; in the middle hairpins, there is HCxxCxxC motif, the first and the last residues of which contribute to the zinc-binding site on one side of hairpin, whereas the middle residues contribute to the zinc-binding site on the other side
  91. 1968197g.94: Complement C3 linker domain-like [254109] (1 superfamily)
  92. 1968207g.95: bi-CXXC zinc finger-like [267591] (1 superfamily)
    duplication; dimetal(zinc)-bound fold with little secondary structure

More info for Class g: Small proteins

Timeline for Class g: Small proteins: