SCOP 1.73: Superfamily d.3.1: Cysteine proteinases

Lineage for Superfamily d.3.1: Cysteine proteinases

1. Root: SCOP 1.73

2. Class d: Alpha and beta proteins (a+b) [53931] (334 folds)

3. Fold 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. Superfamily d.3.1: Cysteine proteinases [54001] (16 families)
   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

Families:

1. d.3.1.1: Papain-like [54002] (25 proteins)

2. d.3.1.2: FMDV leader protease [54037] (1 protein)

3. d.3.1.3: Calpain large subunit, catalytic domain (domain II) [54040] (1 protein)

4. d.3.1.4: Transglutaminase core [54044] (2 proteins)

5. d.3.1.5: Arylamine N-acetyltransferase [54047] (1 protein)
   fold similar to that of the factor XIII catalytic domain

6. d.3.1.6: Ubiquitin carboxyl-terminal hydrolase UCH-L [54050] (2 proteins)

7. d.3.1.7: Adenain-like [54054] (5 proteins)
   Pfam PF02902; Ulp1 protease family

8. d.3.1.8: Microbial transglutaminase [75336] (1 protein)
   inverted positions of the catalytic triad Asp and His residues

9. d.3.1.9: Ubiquitin carboxyl-terminal hydrolase, UCH [82568] (4 proteins)
   Pfam PF00443

10. d.3.1.10: Avirulence protein Avrpph3 [102723] (1 protein)

11. d.3.1.11: Ubiquitin thiolesterase protein OTUB2 (Otubain-2) [110773] (1 protein)
    probably the same as Pfam PF02338, OTU-like cysteine protease, but 1TFF (SQ Q96DC9) was not detected by the Pfam model

12. d.3.1.12: IgG-specific endopeptidase IdeS (Sib38) [117762] (1 protein)

13. d.3.1.13: Lpg0564-like [142864] (1 protein)
    Pfam PF07313, DUF1460; contains new PDB entry 2p1g, annotated as putative xylanase

14. d.3.1.14: Phytochelatin synthase [142867] (1 protein)
    Pfam PF05023; assosiated Pfam 09328 (DUF1984) is a part of the same functional unit

15. d.3.1.15: CHAP domain [142870] (1 protein)
    Pfam PF05257

16. d.3.1.16: NlpC/P60 [142873] (1 protein)
    Pfam PF00877

More info for Superfamily d.3.1: Cysteine proteinases

Timeline for Superfamily d.3.1: Cysteine proteinases:

• Superfamily d.3.1: Cysteine proteinases first appeared (with stable ids) in SCOP 1.55
  
• Superfamily d.3.1: Cysteine proteinases appears in SCOP 1.71
  
• Superfamily d.3.1: Cysteine proteinases appears in SCOP 1.75
  
• Superfamily d.3.1: Cysteine proteinases appears in the current release, SCOPe 2.08