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

  1. Root: SCOP 1.71
  2. 530466Class a: All alpha proteins [46456] (226 folds)
  3. 532780Fold a.4: DNA/RNA-binding 3-helical bundle [46688] (14 superfamilies)
    core: 3-helices; bundle, closed or partly opened, right-handed twist; up-and down
  4. 533238Superfamily a.4.5: "Winged helix" DNA-binding domain [46785] (61 families) (S)
    contains a small beta-sheet (wing)

Families:

  1. 533239a.4.5.1: Biotin repressor-like [46786] (2 proteins)
  2. 533249a.4.5.2: LexA repressor, N-terminal DNA-binding domain [46789] (1 protein)
  3. 533256a.4.5.3: Arginine repressor (ArgR), N-terminal DNA-binding domain [46792] (1 protein)
  4. 533274a.4.5.4: CAP C-terminal domain-like [46796] (3 proteins)
  5. 533308a.4.5.5: ArsR-like transcriptional regulators [46801] (3 proteins)
    The N- and C-terminal helical extensions to the common fold form the dimer interface
  6. 533331a.4.5.6: GntR-like transcriptional regulators [46804] (1 protein)
  7. 533342a.4.5.7: Replication terminator protein (RTP) [46807] (1 protein)
  8. 533351a.4.5.8: N-terminal domain of molybdate-dependent transcriptional regulator ModE [46810] (1 protein)
    contains beta-hairpin in the N-terminal extension and two helices in the C-terminal extension
  9. 533362a.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 of ArsR-like family)
  10. 533368a.4.5.10: Replication initiation protein [46816] (2 proteins)
    duplication: tandem repeat of two "winged helix" domains arranged with the pseudo twofold symmetry
  11. 533377a.4.5.11: Helicase DNA-binding domain [46819] (3 proteins)
    follows the extended AAA-ATPase domain
  12. 533402a.4.5.12: Restriction endonuclease FokI, N-terminal (recognition) domain [46824] (1 protein)
  13. 533414a.4.5.13: Linker histone H1/H5 [46827] (3 proteins)
  14. 533427a.4.5.14: Forkhead DNA-binding domain [46832] (5 proteins)
  15. 533444a.4.5.15: DNA-binding domain from rap30 [46841] (1 protein)
  16. 533449a.4.5.16: C-terminal domain of RPA32 [46844] (1 protein)
  17. 533453a.4.5.17: Cell cycle transcription factor e2f-dp [46847] (2 proteins)
    heterodimer of two homologous chains
  18. 533460a.4.5.18: The central core domain of TFIIE beta [46850] (1 protein)
  19. 533465a.4.5.19: Z-DNA binding domain [46853] (4 proteins)
    Pfam 02295
  20. 533482a.4.5.20: P4 origin-binding domain-like [46856] (2 proteins)
    C-terminus passes through the first loop
  21. 533494a.4.5.21: ets domain [46859] (6 proteins)
  22. 533533a.4.5.22: Heat-shock transcription factor [46873] (1 protein)
  23. 533553a.4.5.23: Interferon regulatory factor [46877] (3 proteins)
    Pfam 00605
  24. 533572a.4.5.24: Iron-dependent repressor protein [46882] (3 proteins)
  25. 533625a.4.5.25: Methionine aminopeptidase, insert domain [46887] (1 protein)
    circularly permuted version of the "winged helix" fold
  26. 533646a.4.5.27: TnsA endonuclease, C-terminal domain [46782] (1 protein)
  27. 533653a.4.5.28: MarR-like transcriptional regulators [63379] (8 proteins)
    The N- and C-terminal helical extensions to the common fold form the dimer interface
  28. 533690a.4.5.29: Plant O-methyltransferase, N-terminal domain [63475] (5 proteins)
    unknown function
  29. 533720a.4.5.30: C-terminal domain of the rap74 subunit of TFIIF [63480] (1 protein)
  30. 533727a.4.5.31: DEP domain [63483] (4 proteins)
    membrane-binding domain
  31. 533742a.4.5.32: Lrp/AsnC-like transcriptional regulator N-terminal domain [68967] (2 proteins)
    Swapped dimer with the "wing" C-terminal strands
  32. 533750a.4.5.33: Transcriptional regulator IclR, N-terminal domain [74676] (1 protein)
  33. 533755a.4.5.34: SCF ubiquitin ligase complex WHB domain [74679] (2 proteins)
  34. 533769a.4.5.35: C-terminal fragment of elongation factor SelB [74683] (1 protein)
  35. 533776a.4.5.36: DNA-binding protein Mj223 [81690] (1 protein)
    homologous to the MarR-like family in the DNA-binding region but dimerizes differently through the N- and C-terminal helical extensions to the common fold
  36. 533781a.4.5.37: LysR-like transcriptional regulators [88979] (1 protein)
    contains long helix in the C-terminal extension; forms dimer similar to the RTP dimer
  37. 533790a.4.5.38: Transcriptional repressor Rex, N-terminal domain [101007] (1 protein)
  38. 533800a.4.5.39: Penicillinase repressor [101016] (2 proteins)
    homologous to the MarR-like family in the DNA-binding region but has a different dimerisation subdomain
  39. 533817a.4.5.40: N-terminal domain of Bacillus PurR [101021] (1 protein)
  40. 533828a.4.5.41: Transcription factor E/IIe-alpha, N-terminal domain [101024] (1 protein)
    contains extra N-terminal helix
  41. 533832a.4.5.42: FUR-like [101027] (1 protein)
    contains extra N-terminal helix and an alpha+beta dimerisation subdomain
  42. 533836a.4.5.43: DNA helicase RecQ DNA-binding domain [101030] (1 protein)
    follows the tandem AAA-ATPase domain
  43. 533841a.4.5.44: 39 kda initiator binding protein, IBP39, N-terminal domain [101045] (1 protein)
  44. 533851a.4.5.45: Dissimilatory sulfite reductase DsvD [101048] (1 protein)
  45. 533856a.4.5.46: La domain [101051] (1 protein)
    Pfam 05383; RNA-binding domain
  46. 533862a.4.5.47: PCI domain (PINT motif) [109671] (2 proteins)
    Pfam 01399
  47. 533869a.4.5.48: Hypothetical protein F93 [109674] (1 protein)
    contains long helix in the C-terminal extension; forms dimer similar to the RTP and LysR dimers
  48. 533874a.4.5.49: Archaeal DNA-binding protein [109677] (1 protein)
    contains long helix in the C-terminal extension; forms dimer similar to the RTP and LysR dimers
  49. 533878a.4.5.50: Hypothetical protein AF2008 [109680] (1 protein)
    The N- and C-terminal helical extensions to the common fold form the dimer interface, distinct from other known families
  50. 533883a.4.5.51: Heat-inducible transcription repressor HrcA, N-terminal domain [109683] (1 protein)
    similar domain organization to the transcriptional regulator IclR
  51. 533889a.4.5.52: DNA replication factor Cdt1 [109686] (1 protein)
  52. 533894a.4.5.53: Eukaryotic translation initiation factor 3 subunit 12, eIF3k, C-terminal domain [109689] (1 protein)
    C-terminal part of Pfam 06272
  53. 533898a.4.5.54: Vacuolar sorting protein domain [109692] (3 proteins)
    duplication: tandem repeat of two "winged-helix" domains
  54. 533921a.4.5.55: Transcriptional regulator Rrf2 [109699] (1 protein)
    Pfam 02082
  55. 533925a.4.5.56: Rio2 serine protein kinase N-terminal domain [109702] (1 protein)
  56. 533931a.4.5.57: Rad21/Rec8-like [116795] (1 protein)
    Pfam 04824
  57. 533938a.4.5.58: Hypothetical protein PH1932 [116798] (1 protein)
    contains new dimerisation all-alpha C-terminal subdomain
  58. 533942a.4.5.59: An Obfc1 domain [116801] (1 protein)
    helix-loop insertion in the HTH motif
  59. 533946a.4.5.60: ScpB/YpuH-like [116804] (1 protein)
    Pfam 04079
    duplication: tandem repeat of two 'winged helix' domains; forms a dimer via the C-terminal domain
  60. 533953a.4.5.61: PadR-like [116807] (2 proteins)
    Pfam 03551; related to the MarR-like family (Pfam 01047)
  61. 533961a.4.5.62: Hypothetical protein YhgG [116812] (1 protein)

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

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