Fold: Restriction endonuclease-like

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

Lineage:

1. Root: scop
2. Class: Alpha and beta proteins (a/b) [51349]
   Mainly parallel beta sheets (beta-alpha-beta units)
3. Fold: Restriction endonuclease-like [52979]
   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

Superfamilies:

1. Restriction endonuclease-like [52980] (33)
   uperfamily
   1. Restriction endonuclease EcoRI [52981] (1)
   2. Restriction endonuclease EcoRV [52984] (1)
   3. Restriction endonuclease BamHI [52987] (1)
   4. Restriction endonuclease BglI [52990] (1)
   5. Restriction endonuclease BglII [52993] (1)
   6. Restriction endonuclease BstyI [102471] (1)
   7. Restriction endonuclease PvuII [52996] (1)
   8. Cfr10I/Bse634I [52999] (2)
   9. Restriction endonuclease MunI [53002] (1)
   10. Restriction endonuclease NaeI [53005] (1)
   11. Restriction endonuclease NgoIV [53008] (1)
   12. Restriction endonuclease BsobI [53011] (1)
   13. Restriction endonuclease HincII [69525] (1)
   14. Restriction endonuclease FokI, C-terminal (catalytic) domain [53014] (1)
   15. Type II restriction endonuclease catalytic domain [102474] (1)
   16. lambda exonuclease [53017] (1)
   17. DNA mismatch repair protein MutH from [53020] (1)
   18. Very short patch repair (VSR) endonuclease [53023] (1)
   19. TnsA endonuclease, N-terminal domain [53026] (1)
   20. Endonuclease I (Holliday junction resolvase) [53029] (1)
   21. Hjc-like [64080] (3)
       Pfam 01870
   22. XPF/Rad1/Mus81 nuclease [89716] (3)
   23. Restriction endonuclease MspI [110624] (1)
   24. Exodeoxyribonuclease V beta chain (RecB), C-terminal domain [117619] (1)
       related to the RecC domain
   25. Exodeoxyribonuclease V beta chain (RecC), C-terminal domain [117622] (1)
       related to the RecB domain
   26. Hypothetical protein VC1899 [117625] (1)
       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 (scop_cf 53327)]; d2: [distorted "winged helix" fold (scop_sf 46785)]
   27. Hypothetical protein TT1808 (TTHA1514) [117628] (1)
       Pfam 05685; DUF820
   28. RecU-like [117631] (2)
       Pfam 03838
   29. Restriction endonuclease EcoO109IR [117635] (1)
   30. MRR-like [117638] (1)
       Pfam 04471
   31. PA4535-like [142449] (1)
       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
   32. XisH-like [159601] (2)
       Pfam 08814
   33. YaeQ-like [159605] (2)
       Pfam 07152; contains extra N- and C-terminal beta-structures forming additional five-stranded beta-sheet; retains the PD motif in the putative active site
2. tRNA-intron endonuclease catalytic domain-like [53032] (1)
   uperfamily
   1. tRNA-intron endonuclease catalytic domain-like [53033] (3)
3. Eukaryotic RPB5 N-terminal domain [53036] (1)
   uperfamily
   1. Eukaryotic RPB5 N-terminal domain [53037] (1)
4. TBP-interacting protein-like [159612] (1)
   contains extra C-terminal alpha+beta domain of complex fold with an embeded C2H2 zinc-finger
   1. TBP-interacting protein-like [159613] (1)
      PfamB 059845 (N-terminal domain) and Pfam B059846 (C-terminal region)

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