Class: Small proteins

Usually dominated by metal ligand, heme, and/or disulfide bridges

Lineage:

1. Root: scop
2. Class: Small proteins [56992]
   Usually dominated by metal ligand, heme, and/or disulfide bridges

Folds:

1. Insulin-like [56993] (1)
   nearly all-alpha
   can be classified as disulfide-rich
2. Knottins (small inhibitors, toxins, lectins) [57015] (19)
   disulfide-bound fold; contains beta-hairpin with two adjacent disulfides
3. PMP inhibitors [57282] (1)
   disulfide-rich fold; all-beta: 3 antiparallel strands
4. Midkine [57287] (1)
   disulfide-rich fold; all-beta: 3 antiparallel strands
5. TSP-1 type 1 repeat [82894] (1)
   disulfide-rich fold; all-beta: 3 antiparallel strands
6. Amb V allergen [57295] (1)
   disulfide-rich; alpha+beta: 3 antiparallel strands followed by a short alpha helix
7. Snake toxin-like [57301] (1)
   disulfide-rich fold: nearly all-beta
8. BPTI-like [57361] (1)
   disulfide-rich alpha+beta fold
9. Defensin-like [57391] (1)
   Disulfide-rich fold, nearly all-beta
10. Hairpin loop containing domain-like [57413] (1)
    alpha+beta fold with two crossing loops
11. Neurotoxin III (ATX III) [57418] (1)
    disulfide-rich fold
12. LDL receptor-like module [57423] (1)
    disulfide-rich calcium-binding fold
13. Crambin-like [57428] (1)
    disulfide-rich alpha+beta fold
14. Kringle-like [57439] (1)
    disulfide-rich fold; nearly all-beta
15. Kazal-type serine protease inhibitors [100894] (1)
16. Plant proteinase inhibitors [100896] (1)
    disulfide-rich small alpha+beta fold; topological similarity to the Ovomucoid domain III
17. Trefoil/Plexin domain-like [57491] (3)
    disulfide-rich fold; common core is alpha+beta with two conserved disulfides
18. Necrosis inducing protein 1, NIP1 [103579] (1)
    disulfide-rich fold; all-beta; duplication: contains two structural repeats
19. Cystine-knot cytokines [57500] (1)
    disulfide-rich fold; common core is all-beta
20. Complement control module/SCR domain [57534] (1)
    disulfide-rich all-beta fold
21. Crisp domain-like [57545] (1)
    disulfide-rich all-alpha fold
22. Blood coagulation inhibitor (disintegrin) [57551] (1)
    small disulfide-rich
23. Methylamine dehydrogenase, L chain [57560] (1)
    disulfide-rich; nearly all-beta
24. Serine protease inhibitors [57566] (1)
    disulfide-rich; nearly all-beta
25. TB module/8-cys domain [57580] (1)
    disulfide-rich; alpha+beta
26. TNF receptor-like [57585] (1)
    duplication: consists of three similar disulfide-rich domains
27. Heparin-binding domain from vascular endothelial growth factor [57592] (1)
    duplication: consists of two similar disulfide-rich domains, alpha+beta
28. Antifungal protein (AGAFP) [57597] (1)
    disulfide-rich; all-beta: open barrel, 5 strands; OB-fold-like
29. FnI-like domain [57602] (1)
    disulfide-rich, all-beta
30. Thyroglobulin type-1 domain [57609] (1)
    disulfide-rich, alpha+beta
31. Type X cellulose binding domain, CBDX [57614] (1)
    disulfide-rich, alpha+beta
32. Cellulose docking domain, dockering [64570] (1)
    disulfide-rich, alpha+beta
33. Carboxypeptidase inhibitor [57619] (1)
    disulfide-rich, alpha+beta
34. Invertebrate chitin-binding proteins [57624] (1)
    disulfide-rich
35. Pheromone ER-23 [69963] (1)
    disulfide-rich, all-alpha
36. Mollusk pheromone [90182] (1)
    disulfide-rich; all-alpha
37. Apical membrane antigen 1 [82909] (1)
    disulfide-rich, alpha+beta
38. Somatomedin B domain [90187] (1)
    disulfide-rich
39. Notch domain [90192] (1)
    disulfide-rich; all-alpha; calcium-binding
40. Mini-collagen I, C-terminal domain [103588] (1)
    disulfide-rich
41. Hormone receptor domain [111417] (1)
    disulfide-rich all-beta fold; contains beta sandwich of 5 strands
42. Resistin [111422] (1)
    disulfide-rich six-stranded beta-sandwich; jelly-roll
43. YAP1 redox domain [111429] (1)
    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 (scop_cf 46928)
44. Toxic hairpin [57006] (4)
    disulfide crosslinked alpha-helical hairpin
45. Tim10-like [144121] (1)
    alpha-hairpin crosslinked by two disulfides; assembles into a heterohexameric ring-like structure
46. Cysteine zipper [144128] (1)
    string of helices that contain cysteines at almost every turn; folds upon itself and is crosslnked by multiple disulfides
47. GLA-domain [57629] (1)
    Calcium ion-bound
48. Cholecystokinin A receptor, N-domain [57641] (1)
    a few helical turns and a disulfide-crosslinked loop
49. HIV-1 VPU cytoplasmic domain [57646] (1)
    a few helical turns assembled without a hydrophobic core?
50. HIPIP (high potential iron protein) [57651] (1)
    folds around 4Fe-4S cluster
51. Ferredoxin thioredoxin reductase (FTR), catalytic beta chain [57661] (1)
    folds around 4Fe-4S cluster
52. beta-beta-alpha zinc fingers [57666] (1)
    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
53. Zn2/Cys6 DNA-binding domain [57700] (1)
    all-alpha dimetal(zinc)-bound fold
54. Glucocorticoid receptor-like (DNA-binding domain) [57715] (1)
    alpha+beta metal(zinc)-bound fold
55. SBT domain [103611] (1)
    consist of two different zn-binding subdomains, each subdomain resembles a distorted glucocorticoid receptor-like fold
56. Retrovirus zinc finger-like domains [57755] (1)
    metal(zinc)-bound fold
57. Rubredoxin-like [57769] (17)
    metal(zinc or iron)-bound fold; sequence contains two CX(n)C motifs, in most cases n = 2
58. Ribosomal protein L36 [57839] (1)
    zinc-bound beta-ribbon motif
59. Zinc-binding domain of translation initiation factor 2 beta [75688] (1)
    zinc-bound beta-ribbon motif
60. WRKY DNA-binding domain [118289] (1)
    zinc-bound 4-stranded meander beta-sheet, distinct from the beta-ribbon motifs
61. B-box zinc-binding domain [57844] (1)
    zinc-bound alpha+beta motif
62. RING/U-box [57849] (1)
    dimetal(zinc)-bound alpha+beta motif; structurally diverse
63. ArfGap/RecO-like zinc finger [57862] (1)
    zinc-bound alpha+beta motif
64. Metallothionein [57867] (1)
    metal(iron)-bound fold
    duplication: consists of clear structural/sequence repeats
65. Zinc domain conserved in yeast copper-regulated transcription factors [57878] (1)
    metal(zinc)-bound alpha+beta fold
66. Ada DNA repair protein, N-terminal domain (N-Ada 10) [57883] (1)
    metal(zinc)-bound alpha+beta fold
67. Cysteine-rich domain [57888] (1)
    dimetal(zinc)-bound alpha+beta fold
68. AN1-like Zinc finger [118309] (1)
    dimetal(zinc)-bound alpha+beta fold; partial similarity to the Cysteine-rich domain fold (scop_cf 57888)
69. HIT/MYND zinc finger-like [144231] (1)
    dimetal(zinc)-bound alpha+beta fold; structural similarity to members of the Cysteine-rich domain fold (scop_cf 57888)
70. CHY zinc finger-like [161218] (1)
    trimetal-bound fold; integration of HIT/MYND-like and rubredoxin-like fingers
71. FYVE/PHD zinc finger [57902] (1)
    dimetal(zinc)-bound alpha+beta fold
72. Zn-binding domains of ADDBP [57916] (1)
    metal(zinc)-bound alpha+beta fold
73. Inhibitor of apoptosis (IAP) repeat [57923] (1)
    metal(zinc)-bound alpha+beta fold
74. CCCH zinc finger [90228] (1)
    metal(zinc)-bound alpha+beta fold
75. E6 C-terminal domain-like [161228] (1)
    alpha+beta zinc-binding fold with topological similarity to the fold of lambda cro protein
76. E7 C-terminal domain-like [161233] (1)
    alpha+beta zinc-binding domain; beta(2)-alpha(2)
77. Zinc finger domain of DNA polymerase-alpha [90233] (1)
    Zn-binding, all-alpha fold
78. TAZ domain [57932] (1)
    all-alpha fold; Zn-binding sites are in the loops connecting helices
79. T-antigen specific domain-like [161239] (1)
    all-alpha zinc-binding domain; there are two zinc ion-binding sites with a common CxCxxC motif but different fourth ligands
80. Cysteine-rich DNA binding domain, (DM domain) [82926] (1)
    alpha-helical fold with two Zn-binding sites
81. Coronavirus NSP10-like [144245] (1)
    binds two zinc ion per subunit; forms a dodecameric shell
82. Zinc hairpin stack [161244] (1)
    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
83. DnaJ/Hsp40 cysteine-rich domain [57937] (1)
    metal(zinc)-bound extended beta-hairpin fold
84. HSP33 redox switch-like [118351] (1)
    alpha+beta zinc-binding domain; alpha(2)-beta(2)-alpha
85. CCHHC domain [103636] (1)
    metal(zinc)-bound fold
86. Sec-C motif [103641] (1)
    metal(zinc)-bound fold
87. Viral leader polypeptide zinc finger [144250] (1)
    consists of small beta-hairpin with CxH motif and short helix with CxxC motif
88. TSP type-3 repeat [103646] (1)
    metal(calcium)-bound fold
89. Expressed protein At2g23090/F21P24.15 [118358] (1)
    not assigned; partly disordered
90. Intrinsically disordered proteins [144255] (1)
    not a true fold

Generated from scop database 1.75 with scopm 1.101 on Wed Jun 3 10:42:06 2009 Copyright © 1994-2009 The scop authors / scop@mrc-lmb.cam.ac.uk