SCOPe 2.06: Superfamily c.52.1: Restriction endonuclease-like

Lineage for Superfamily c.52.1: Restriction endonuclease-like

1. Root: SCOPe 2.06

2. Class c: Alpha and beta proteins (a/b) [51349] (148 folds)

3. Fold c.52: Restriction endonuclease-like [52979] (4 superfamilies)
   core: 3 layers, a/b/a; mixed beta-sheet of 5 strands, order 12345; strands 2 &, in some families, 5 are antiparallel to the rest

4. Superfamily c.52.1: Restriction endonuclease-like [52980] (36 families)

Families:

1. c.52.1.1: Restriction endonuclease EcoRI [52981] (2 proteins)
   automatically mapped to Pfam PF02963

2. c.52.1.2: Restriction endonuclease EcoRV [52984] (1 protein)
   automatically mapped to Pfam PF09233

3. c.52.1.3: Restriction endonuclease BamHI [52987] (1 protein)
   automatically mapped to Pfam PF02923

4. c.52.1.4: Restriction endonuclease BglI [52990] (1 protein)

5. c.52.1.5: Restriction endonuclease BglII [52993] (1 protein)

6. c.52.1.6: Restriction endonuclease PvuII [52996] (2 proteins)
   automatically mapped to Pfam PF09225

7. c.52.1.7: Cfr10I/Bse634I [52999] (2 proteins)
   automatically mapped to Pfam PF07832

8. c.52.1.8: Restriction endonuclease MunI [53002] (1 protein)
   automatically mapped to Pfam PF11407

9. c.52.1.9: Restriction endonuclease NaeI [53005] (1 protein)
   automatically mapped to Pfam PF09126

10. c.52.1.10: Restriction endonuclease NgoIV [53008] (1 protein)
    automatically mapped to Pfam PF09015

11. c.52.1.11: Restriction endonuclease BsobI [53011] (1 protein)
    automatically mapped to Pfam PF09194

12. c.52.1.12: Restriction endonuclease FokI, C-terminal (catalytic) domain [53014] (1 protein)
    automatically mapped to Pfam PF09254

13. c.52.1.13: lambda exonuclease [53017] (1 protein)

14. c.52.1.14: DNA mismatch repair protein MutH from [53020] (2 proteins)

15. c.52.1.15: Very short patch repair (VSR) endonuclease [53023] (1 protein)

16. c.52.1.16: TnsA endonuclease, N-terminal domain [53026] (1 protein)

17. c.52.1.17: Endonuclease I (Holliday junction resolvase) [53029] (2 proteins)
    automatically mapped to Pfam PF05367

18. c.52.1.18: Hjc-like [64080] (3 proteins)
    Pfam PF01870

19. c.52.1.19: Restriction endonuclease HincII [69525] (1 protein)
    automatically mapped to Pfam PF09226

20. c.52.1.20: XPF/Rad1/Mus81 nuclease [89716] (3 proteins)

21. c.52.1.21: Restriction endonuclease BstyI [102471] (1 protein)
    automatically mapped to Pfam PF09195

22. c.52.1.22: Type II restriction endonuclease catalytic domain [102474] (1 protein)

23. c.52.1.23: Restriction endonuclease MspI [110624] (1 protein)
    automatically mapped to Pfam PF09208

24. c.52.1.24: Exodeoxyribonuclease V beta chain (RecB), C-terminal domain [117619] (1 protein)
    related to the RecC domain

25. c.52.1.25: Exodeoxyribonuclease V beta chain (RecC), C-terminal domain [117622] (1 protein)
    related to the RecB domain

26. c.52.1.26: Hypothetical protein VC1899 [117625] (1 protein)
    contains 2 extra N-terminal domains; d1: [alpha/beta; 3 layers: a/b/a; mixed beta-sheet of 7 strands, order 3214567; strand 6 is antiparallel to the rest; topological similarity to the Formyltransferase fold (53327)]; d2: [distorted "winged helix" fold (46785)]
    automatically mapped to Pfam PF09002

27. c.52.1.27: Hypothetical protein TT1808 (TTHA1514) [117628] (1 protein)
    Pfam PF05685; DUF820

28. c.52.1.28: RecU-like [117631] (2 proteins)
    Pfam PF03838

29. c.52.1.29: Restriction endonuclease EcoO109IR [117635] (1 protein)

30. c.52.1.30: MRR-like [117638] (1 protein)
    Pfam PF04471

31. c.52.1.31: PA4535-like [142449] (1 protein)
    contains the PD motif at the beginning of strand 2 and putative catalytic glutamate in strand 3, whereas the putative catalytic lysine is migrated to an alpha-helix
    automatically mapped to Pfam PF08682

32. c.52.1.32: XisH-like [159601] (1 protein)
    Pfam PF08814

33. c.52.1.33: YaeQ-like [159605] (2 proteins)
    Pfam PF07152; contains extra N- and C-terminal beta-structures forming additional five-stranded beta-sheet; retains the PD motif in the putative active site

34. c.52.1.34: PA N-terminal domain [254166] (2 proteins)
    Pfam PF00603; relationship to endonucleases discussed in PubMed 19194458

35. c.52.1.35: Virus-type replication-repair nuclease (VRR-Nuc) [310663] (3 proteins)
    Pfam PF08774

36. c.52.1.0: automated matches [191531] (1 protein)
    not a true family

More info for Superfamily c.52.1: Restriction endonuclease-like

Timeline for Superfamily c.52.1: Restriction endonuclease-like:

• Superfamily c.52.1: Restriction endonuclease-like first appeared (with stable ids) in SCOP 1.55
  
• Superfamily c.52.1: Restriction endonuclease-like appears in SCOPe 2.05
  
• Superfamily c.52.1: Restriction endonuclease-like appears in SCOPe 2.07
  
• Superfamily c.52.1: Restriction endonuclease-like appears in the current release, SCOPe 2.08