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 Family d.3.1.1: Papain-like

  1. Root: SCOPe 2.06
  2. 2152203Class d: Alpha and beta proteins (a+b) [53931] (385 folds)
  3. 2154577Fold d.3: Cysteine proteinases [54000] (1 superfamily)
    consists of one alpha-helix and 4 strands of antiparallel beta-sheet and contains the catalytic triad Cys-His-Asn
  4. 2154578Superfamily d.3.1: Cysteine proteinases [54001] (24 families) (S)
    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
  5. 2154579Family d.3.1.1: Papain-like [54002] (26 protein domains)

Protein Domains:

  1. 2154580(Pro)cathepsin B [54022] (3 species)
    1. 2154581Species Cow (Bos taurus) [TaxId:9913] [54025] (3 PDB entries)
    2. 2154585Species Human (Homo sapiens) [TaxId:9606] [54023] (6 PDB entries)
    3. 2154596Species Norway rat (Rattus norvegicus) [TaxId:10116] [54024] (4 PDB entries)
  2. 2154605(Pro)cathepsin K [54028] (3 species)
    1. 2154606Species Human (Homo sapiens) [TaxId:9606] [54029] (51 PDB entries)
      Uniprot P43235 116-329 ! Uniprot P43235 115-329
    2. 2154662Species Rabbit (Oryctolagus cuniculus) [TaxId:9986] [142845] (1 PDB entry)
      Uniprot P43236 115-329
    3. 2285440Species Mus musculus [TaxId:10090] [328741] (1 PDB entry)
  3. 2154664(Pro)cathepsin L [54026] (1 species)
  4. 2154672(Pro)cathepsin S [82566] (1 species)
  5. 2154716(Pro)cathepsin V [64202] (1 species)
  6. 2154726(Pro)cathepsin X [54031] (1 species)
  7. 2154732Actinidin [54003] (1 species)
  8. 2154736Bleomycin hydrolase [54017] (2 species)
    DNA-binding protease that has more insertions in the papain-like fold
    1. 2154737Species Baker's yeast (Saccharomyces cerevisiae), Gal6 [TaxId:4932] [54018] (9 PDB entries)
    2. 2154747Species Human (Homo sapiens) [TaxId:9606] [54019] (2 PDB entries)
  9. 2154753Caricain (protease omega) [54007] (1 species)
  10. 2154760Cathepsin C (dipeptidyl peptidase I), catalytic domain [75330] (2 species)
    1. 2154761Species Human (Homo sapiens) [TaxId:9606] [75331] (1 PDB entry)
    2. 2154763Species Norway rat (Rattus norvegicus) [TaxId:10116] [82565] (1 PDB entry)
  11. 2154765Cathepsin F [89805] (1 species)
  12. 2154769Cathepsin H [81637] (1 species)
    also contains a disulfide-bound minicathepsin H chain
  13. 2154780Chymopapain [54009] (1 species)
  14. 2154783Cruzain [54020] (1 species)
  15. 2154829Ervatamin B [89803] (1 species)
  16. 2154832Ervatamin C [102717] (1 species)
  17. 2154836Falcipain 2 [142846] (1 species)
  18. 2154849Glycyl endopeptidase [54011] (1 species)
  19. 2154852Major mite fecal allergen der p 1 [142848] (1 species)
  20. 2154859Papain [54005] (1 species)
  21. 2154887Proline-specific cysteine protease [54013] (1 species)
  22. 2154893Staphopain SspB [102721] (1 species)
  23. 2154903Staphopain StpA [54033] (1 species)
  24. 2154906Streptococcal pyrogenic exotoxin B [54035] (1 species)
  25. 2154916Vignain (bean endopeptidase) [102719] (1 species)
  26. 2154920automated matches [190264] (11 species)
    not a true protein
    1. 2154921Species Actinidia arguta [TaxId:64478] [189532] (4 PDB entries)
    2. 2154926Species Carica candamarcensis [TaxId:35926] [189214] (1 PDB entry)
    3. 2154928Species Cow (Bos taurus) [TaxId:9913] [187053] (8 PDB entries)
    4. 2154937Species Ervatamia coronaria [311236] (1 PDB entry)
    5. 2154939Species Human (Homo sapiens) [TaxId:9606] [187102] (7 PDB entries)
    6. 2154952Species Jacaratia mexicana [TaxId:309130] [187452] (1 PDB entry)
    7. 2154957Species Malaria parasite (Plasmodium falciparum) [TaxId:5833] [188686] (2 PDB entries)
    8. 2154964Species Mouse (Mus musculus) [TaxId:10090] [229208] (7 PDB entries)
    9. 2154993Species Tabernaemontana divaricata [TaxId:52861] [187993] (3 PDB entries)
    10. 2155000Species Trypanosoma brucei [TaxId:31286] [188393] (2 PDB entries)
    11. 2272218Species Ficus carica [TaxId:3494] [315519] (1 PDB entry)

More info for Family d.3.1.1: Papain-like

Timeline for Family d.3.1.1: Papain-like: