Structural Classification of Proteins
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Superfamily: Cysteine proteinases

the constitute families differ by insertion into and circular permutation of the common catalytic core made of one alpha-helix and 3-strands of beta-sheet
link to SUPERFAMILY database - Superfamily

Lineage:

  1. Root: scop
  2. Class: Alpha and beta proteins (a+b) [53931]
    Mainly antiparallel beta sheets (segregated alpha and beta regions)
  3. Fold: Cysteine proteinases [54000]
    consists of one alpha-helix and 4 strands of antiparallel beta-sheet and contains the catalytic triad Cys-His-Asn
  4. Superfamily: Cysteine proteinases [54001]
    the constitute families differ by insertion into and circular permutation of the common catalytic core made of one alpha-helix and 3-strands of beta-sheet
    link to SUPERFAMILY database - Superfamily

Families:

  1. Papain-like [54002] (30)
    1. Actinidin [54003]
      1. Chinese gooseberry or kiwifruit (Actinidia chinensis) [TaxId: 3625] [54004] (2) picpic
    2. Papain [54005]
      1. Papaya (Carica papaya) [TaxId: 3649] [54006] (18) picpic
    3. Caricain (protease omega) [54007]
      1. Papaya (Carica papaya) [TaxId: 3649] [54008] (3) picpic
    4. Chymopapain [54009]
      1. Papaya (Carica papaya) [TaxId: 3649] [54010] (1) picpic
    5. Glycyl endopeptidase [54011]
      1. Papaya (Carica papaya) [TaxId: 3649] [54012] (1) picpic
    6. Proline-specific cysteine protease [54013]
      1. Ginger rhizome (Zingiber officinale) [TaxId: 94328] [54014] (1) picpic
    7. Ervatamin B [89803]
      1. Adam's apple (Ervatamia coronaria) [TaxId: 52861] [89804] (1) picpic
    8. Ervatamin C [102717]
      1. East indian rosebay (Ervatamia coronaria) [TaxId: 52861] [102718] (1) picpic
    9. Vignain (bean endopeptidase) [102719]
      1. Castor bean (Ricinus communis) [TaxId: 3988] [102720] (1) picpic
    10. Bleomycin hydrolase [54017]
      DNA-binding protease that has more insertions in the papain-like fold
      1. Baker's yeast (Saccharomyces cerevisiae), Gal6 [TaxId: 4932] [54018] (3) picpic
      2. Human (Homo sapiens) [TaxId: 9606] [54019] (2) picpic
    11. Cruzain [54020]
      1. Trypanosoma cruzi [TaxId: 5693] [54021] (17) picpic
    12. (Pro)cathepsin B [54022]
      1. Human (Homo sapiens) [TaxId: 9606] [54023] (6) picpic
      2. Rat (Rattus norvegicus) [TaxId: 10116] [54024] (4) picpic
      3. Cow (Bos taurus) [TaxId: 9913] [54025] (11) picpic
    13. Cathepsin C (dipeptidyl peptidase I), catalytic domain [75330]
      1. Human (Homo sapiens) [TaxId: 9606] [75331] (1) picpic
      2. Rat (Rattus norvegicus) [TaxId: 10116] [82565] (1) picpic
    14. Cathepsin F [89805]
      1. Human (Homo sapiens) [TaxId: 9606] [89806] (1) picpic
    15. Cathepsin H [81637]
      also contains a disulfide-bound minicathepsin H chain
      1. Pig (Sus scrofa) [TaxId: 9823] [81636] (3) picpic
    16. (Pro)cathepsin K [54028]
      1. Human (Homo sapiens) [TaxId: 9606] [54029] (32) picpic
        SQ P43235 116-329 ! SQ P43235 115-329
      2. Rabbit (Oryctolagus cuniculus) [TaxId: 9986] [142845] (1) picpic
        SQ P43236 115-329
    17. (Pro)cathepsin L [54026]
      1. Human (Homo sapiens) [TaxId: 9606] [54027] (4) picpic
    18. (Pro)cathepsin S [82566]
      1. Human (Homo sapiens) [TaxId: 9606] [82567] (36) picpic
    19. (Pro)cathepsin V [64202]
      1. Human (Homo sapiens) [TaxId: 9606] [64203] (1) picpic
    20. (Pro)cathepsin X [54031]
      1. Human (Homo sapiens) [TaxId: 9606] [54032] (2) picpic
    21. Staphopain StpA [54033]
      1. Staphylococcus aureus [TaxId: 1280] [54034] (1) picpic
    22. Staphopain SspB [102721]
      1. Staphylococcus aureus [TaxId: 1280] [102722] (4) picpic
        SQ Q70UQ9 41-393
    23. Streptococcal pyrogenic exotoxin B [54035]
      1. Streptococcus pyogenes [TaxId: 1314] [54036] (2) picpic
        SQ P00788 31-398
    24. Falcipain 2 [142846]
      1. Plasmodium falciparum [TaxId: 5833] [142847] (6) picpic
        SQ Q9N6S8 244-484
    25. Major mite fecal allergen der p 1 [142848]
      1. House-dust mite (Dermatophagoides pteronyssinus) [TaxId: 6956] [142849] (3) picpic
        SQ P08176 19-320! SQ P08176 99-320
  2. Avirulence protein Avrpph3 [102723] (1)
    1. Avirulence protein Avrpph3 [102724]
      1. Pseudomonas syringae pv. phaseolicola [TaxId: 319] [102725] (1) picpic
  3. FMDV leader protease [54037] (1)
    1. FMDV leader protease [54038]
      1. Foot-and-mouth disease virus [TaxId: 12110] [54039] (5) picpic
  4. Calpain large subunit, catalytic domain (domain II) [54040] (5)
    1. Calpain large subunit, catalytic domain (domain II) [54041]
      includes the N-terminal 'sequence' domain I
      1. Human (Homo sapiens), M-type [TaxId: 9606] [54042] (2) picpic
      2. Rat (Rattus norvegicus), M-type [TaxId: 10116] [54043] (3) picpic
      3. Rat (Rattus norvegicus), mu-type [TaxId: 10116] [75332] (10) picpic
        SQ P97571 33-353
      4. Human (Homo sapiens), calpain 9 [TaxId: 9606] [142850] (1) picpic
        SQ O14815 28-337
      5. Human(Homo sapiens), mu type [TaxId: 9606] [142851] (3) picpic
        SQ P07384 33-353! SQ P07384 33-354
  5. Transglutaminase core [54044] (6)
    1. Transglutaminase catalytic domain [54045]
      1. Human (Homo sapiens), blood isozyme [TaxId: 9606] [54046] (8) picpic
        Coagulation factor XIII
      2. Human (Homo sapiens), tissue isozyme [TaxId: 9606] [75333] (2) picpic
        GDP-binding protein
      3. Human (Homo sapiens), TGase E3 [TaxId: 9606] [75334] (8) picpic
      4. Red sea bream (Chrysophrys major) [TaxId: 143350] [64204] (1) picpic
    2. Peptide:N-glycanase 1, PNG1 [142852]
      1. Baker's yeast(Saccharomyces cerevisiae) [TaxId: 4932] [142853] (2) picpic
        SQ Q02890 8-327
      2. Mouse (Mus musculus) [TaxId: 10090] [159840] (2) picpic
        SQ Q9JI78 164-450
  6. Arylamine N-acetyltransferase [54047] (4)
    fold similar to that of the factor XIII catalytic domain
    1. Arylamine N-acetyltransferase [54048]
      1. Salmonella typhimurium [TaxId: 90371] [54049] (1) picpic
      2. Mycobacterium smegmatis [TaxId: 1772] [75335] (7) picpic
      3. Rhizobium loti [TaxId: 381] [142854] (2) picpic
        SQ Q98D42 6-275
      4. Pseudomonas aeruginosa [TaxId: 287] [142855] (1) picpic
        SQ Q9HUY3 1-277
  7. Ubiquitin carboxyl-terminal hydrolase UCH-L [54050] (3)
    1. Ubiquitin carboxyl-terminal hydrolase UCH-l3 [54051]
      1. Human (Homo sapiens) [TaxId: 9606] [54052] (2) picpic
        SQ P15374
      2. Synthetic, based on Saccharomyces cerevisiae sequence [54053] (1) picpic
    2. Ubiquitin carboxyl-terminal hydrolase isozyme l1 [142856]
      1. Human (Homo sapiens) [TaxId: 9606] [142857] (2) picpic
        SQ P09936 1-223
  8. Ubiquitin carboxyl-terminal hydrolase, UCH [82568] (5)
    Pfam 00443
    1. Ubiquitin carboxyl-terminal hydrolase 7 (USP7, HAUSP) [82569]
      1. Human (Homo sapiens) [TaxId: 9606] [82570] (2) picpic
    2. Ubiquitin carboxyl-terminal hydrolase 6 [110769]
      1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [110770] (1) picpic
        SQ P43593 103-499
    3. Ubiquitin carboxyl-terminal hydrolase 8 [142858]
      1. Human (Homo sapiens) [TaxId: 9606] [142859] (1) picpic
        SQ P40818 762-1109
    4. Ubiquitin carboxyl-terminal hydrolase 14 [142860]
      1. Human (Homo sapiens) [TaxId: 9606] [142861] (4) picpic
        SQ P54578 100-482
    5. Ubiquitin carboxyl-terminal hydrolase 2, USP2 [159841]
      1. Human (Homo sapiens) [TaxId: 9606] [159842] (2) picpic
        SQ O75604 263-600! SQ O75604 264-599
  9. Adenain-like [54054] (5)
    Pfam 02902; Ulp1 protease family
    1. Human adenovirus 2 proteinase, adenain [54055]
      1. Mastadenovirus H2 [TaxId: 10515] [54056] (2) picpic
    2. Ulp1 protease C-terminal domain [54057]
      1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [54058] (4) picpic
    3. Sentrin-specific protease 2, SENP2 [110771]
      1. Human (Homo sapiens) [TaxId: 9606] [110772] (8) picpic
        SQ Q9HC62 366-589
    4. Sentrin-specific protease 8, SENP8 [117760]
      1. Human (Homo sapiens) [TaxId: 9606] [117761] (6) picpic
        SQ Q96LD8
    5. Sentrin-specific protease 1 [142862]
      1. Human (Homo sapiens) [TaxId: 9606] [142863] (6) picpic
        SQ Q9P0U3 419-643
  10. Microbial transglutaminase [75336] (1)
    inverted positions of the catalytic triad Asp and His residues
    1. Microbial transglutaminase [75337]
      1. Streptoverticillium mobaraense [TaxId: 35621] [75338] (1) picpic
  11. Ubiquitin thiolesterase protein OTUB2 (Otubain-2) [110773] (1)
    probably the same as Pfam 02338, OTU-like cysteine protease, but 1TFF (SQ Q96DC9) was not detected by the Pfam model
    1. Ubiquitin thiolesterase protein OTUB2 (Otubain-2) [110774]
      1. Human (Homo sapiens) [TaxId: 9606] [110775] (1) picpic
        SQ Q96DC9
  12. IgG-specific endopeptidase IdeS (Sib38) [117762] (1)
    1. IgG-specific endopeptidase IdeS (Sib38) [117763]
      1. Streptococcus pyogenes [TaxId: 1314] [117764] (1) picpic
        SQ Q9F1R7 38-339 # SPy0861
  13. Lpg0564-like [142864] (1)
    Pfam 07313, DUF1460; contains new PDB entry 2p1g, annotated as putative xylanase
    1. Hypothetical protein Lpg0564 [142865]
      1. Legionella pneumophila [TaxId: 446] [142866] (1) picpic
        SQ Q5ZY11 49-352
  14. Phytochelatin synthase [142867] (1)
    Pfam 05023; assosiated Pfam 09328 (DUF1984) is a part of the same functional unit
    1. Primitive phytochelatin synthase [142868]
      1. Nostoc sp. pcc 7120 [TaxId: 103690] [142869] (4) picpic
        SQ Q8YY76 29-238
  15. CHAP domain [142870] (1)
    Pfam 05257
    1. Glutathionylspermidine synthase, amidase domain [142871]
      1. Escherichia coli [TaxId: 562] [142872] (10) picpic
        SQ P0AES0 10-200
  16. NlpC/P60 [142873] (1)
    Pfam 00877
    1. Cell wall-associated hydrolase Spr C-terminal domain [142874]
      1. Nostoc punctiforme [TaxId: 272131] [142875] (3) picpic
        SQ Q8YRR4 87-234
  17. PMT C-terminal domain like [159843] (1)
    displays a minimal thiol-protease fold and its catalytic triad; potential redox regulation: the catalytic cysteine can form a disulfide bond with an N-terminal cysteine
    1. Dermonecrotic toxin, ToxA [159844]
      Synonym: Mitogenic toxin PMT
      1. Pasteurella multocida [TaxId: 747] [159845] (4) picpic
        SQ P17452 1094-1285
  18. MOA C-terminal domain-like [159846] (1)
    PfamB 070855
    1. Agglutinin MOA [159847]
      1. Fairy-ring mushroom (Marasmius oreades) [TaxId: 181124] [159848] (1) picpic
        SQ Q8X123 156-293
  19. Atu2299-like [159849] (1)
    Pfam 09641; DUF2026; putative Cys/Ser-His-Asp catalytic triad
    1. Hypothetical protein Atu2299 [159850]
      Serine catalytic nucleophile
      1. Agrobacterium tumefaciens [TaxId: 358] [159851] (1) picpic
        SQ Q8UD29 1-202
  20. M48USP-like [159852] (1)
    Pfam 04843; Herpesvirus tegument protein, N-terminal conserved region
    1. Tegument protein M48; N-terminal domain [159853]
      1. Murine cytomegalovirus (MCMV) [TaxId: 10366] [159854] (2) picpic
        SQ A8E1C4 1-232
  21. YiiX-like [159855] (1)
    Pfam 06520; DUF1105; circularly permuted active site residues compare to papain
    1. Hypothetical protein YiiX [159856]
      1. Escherichia coli [TaxId: 562] [159857] (2) picpic
        SQ Q8X778 19-200
  22. Autophagin-like [159858] (2)
    Pfam 03416
    1. Cysteine protease ATG4A [159859]
      Autophagin-2
      1. Human (Homo sapiens) [TaxId: 9606] [159860] (4) picpic
        SQ Q8WYN0 26-359
    2. Cysteine protease ATG4B [159861]
      Autophagin-1
      1. Human (Homo sapiens) [TaxId: 9606] [159862] (5) picpic
        SQ Q9Y4P1 10-373! SQ Q9Y4P1 5-354
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MRC site 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