SCOP 1.63: Superfamily a.4.5: "Winged helix" DNA-binding domain

Lineage for Superfamily a.4.5: "Winged helix" DNA-binding domain

1. Root: SCOP 1.63

2. Class a: All alpha proteins [46456] (171 folds)

3. Fold a.4: DNA/RNA-binding 3-helical bundle [46688] (11 superfamilies)
   core: 3-helices; bundle, closed or partly opened, right-handed twist; up-and down

4. Superfamily a.4.5: "Winged helix" DNA-binding domain [46785] (36 families)
   contains a small beta-sheet (wing)

Families:

1. a.4.5.1: Biotin repressor-like [46786] (2 proteins)

2. a.4.5.2: LexA repressor, N-terminal DNA-binding domain [46789] (1 protein)

3. a.4.5.3: Arginine repressor (ArgR), N-terminal DNA-binding domain [46792] (1 protein)

4. a.4.5.4: CAP C-terminal domain-like [46796] (2 proteins)

5. a.4.5.5: ArsR-like transcriptional regulators [46801] (1 protein)
   The N- and C-terminal helical extensions to the common fold form the dimer interface

6. a.4.5.6: GntR-like transcriptional regulators [46804] (1 protein)

7. a.4.5.7: Replication terminator protein (RTP) [46807] (1 protein)

8. a.4.5.8: N-terminal domain of molybdate-dependent transcriptional regulator ModE [46810] (1 protein)
   contains beta-haipin in the N-terminal extension and two helices in the C-terminal extension

9. a.4.5.9: Transcription factor MotA, activation domain [46813] (1 protein)
   The N- and C-terminal helical extensions to the common fold form the dimer interface (distinct from that ot ArsR-like family)

10. a.4.5.10: Replication initiation protein [46816] (1 protein)
    duplication: tandem repeat of two "winged helix" domains arraged with the pseudo twofold symmetry

11. a.4.5.11: Helicase DNA-binding domain [46819] (2 proteins)

12. a.4.5.12: Restriction endonuclease FokI, N-terminal (recognition) domain [46824] (1 protein)

13. a.4.5.13: Histone H1/H5 [46827] (2 proteins)

14. a.4.5.14: Forkhead DNA-binding domain [46832] (4 proteins)

15. a.4.5.15: DNA-binding domain from rap30 [46841] (1 protein)

16. a.4.5.16: C-terminal domain of RPA32 [46844] (1 protein)

17. a.4.5.17: Cell cycle transcription factor e2f-dp [46847] (1 protein)

18. a.4.5.18: The central core domain of TFIIE beta [46850] (1 protein)

19. a.4.5.19: Z-DNA binding domain [46853] (2 proteins)

20. a.4.5.20: P4 origin-binding domain-like [46856] (2 proteins)
    C-terminus passes through the first loop

21. a.4.5.21: ets domain [46859] (6 proteins)

22. a.4.5.22: Heat-shock transcription factor [46873] (1 protein)

23. a.4.5.23: Interferon regulatory factor [46877] (2 proteins)

24. a.4.5.24: Iron-dependent represor protein [46882] (2 proteins)

25. a.4.5.25: Methionine aminopeptidase, insert domain [46887] (1 protein)

26. a.4.5.26: mu transposase, DNA-binding domain [46891] (1 protein)
    another circularly permuted version of "winged helix" fold

27. a.4.5.27: TnsA endonuclease, C-terminal domain [46782] (1 protein)

28. a.4.5.28: MarR-like transcriptional regulators [63379] (5 proteins)
    The N- and C-terminal helical extensions to the common fold form the dimer interface

29. a.4.5.29: Plant O-methyltransferase, N-terminal domain [63475] (3 proteins)
    unknown function

30. a.4.5.30: C-terminal domain of the rap74 subunit of TFIIF [63480] (1 protein)

31. a.4.5.31: DEP domain [63483] (2 proteins)
    membrane-binding domain

32. a.4.5.32: Lrp/AsnC-like transcriptional regulator N-terminal domain [68967] (1 protein)
    Swapped dimer with the "wing" C-terminal strands

33. a.4.5.33: Thanscriptional regulator IclR, N-terminal domain [74676] (1 protein)

34. a.4.5.34: SCF ubiquitin ligase complex WHB domain [74679] (1 protein)

35. a.4.5.35: C-terminal fragment of elongation factor SelB [74683] (1 protein)

36. a.4.5.36: DNA-binding protein Mj223 [81690] (1 protein)
    homologous to the MarR-like family in the DNA-binding region but dimerises differently through the N- and C-terminal helical extensions to the common fold

More info for Superfamily a.4.5: "Winged helix" DNA-binding domain

Timeline for Superfamily a.4.5: "Winged helix" DNA-binding domain:

• Superfamily a.4.5: "Winged helix" DNA-binding domain first appeared (with stable ids) in SCOP 1.55
  
• Superfamily a.4.5: "Winged helix" DNA-binding domain appears in SCOP 1.61
  
• Superfamily a.4.5: "Winged helix" DNA-binding domain appears in SCOP 1.65
  
• Superfamily a.4.5: "Winged helix" DNA-binding domain appears in the current release, SCOPe 2.08, called Superfamily a.4.5: 'Winged helix' DNA-binding domain