Structural Classification of Proteins
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Superfamily: "Winged helix" DNA-binding domain

contains a small beta-sheet (wing)
link to SUPERFAMILY database - Superfamily

Lineage:

  1. Root: scop
  2. Class: All alpha proteins [46456]
  3. Fold: DNA/RNA-binding 3-helical bundle [46688]
    core: 3-helices; bundle, closed or partly opened, right-handed twist; up-and down
  4. Superfamily: "Winged helix" DNA-binding domain [46785]
    contains a small beta-sheet (wing)
    link to SUPERFAMILY database - Superfamily

Families:

  1. Biotin repressor-like [46786] (2)
    1. Biotin repressor, N-terminal domain [46787]
      the middle domain is an alpha+beta fold somewhat similar to the SH2 fold
      C-terminal domain has SH3-like common fold
      1. Escherichia coli [TaxId: 562] [46788] (5) picpic
    2. Putative transcriptional regulator TM1602, N-terminal domain [74674]
      1. Thermotoga maritima [TaxId: 2336] [74675] (1) picpic
  2. LexA repressor, N-terminal DNA-binding domain [46789] (1)
    1. LexA repressor, N-terminal DNA-binding domain [46790]
      1. Escherichia coli [TaxId: 562] [46791] (4) picpic
  3. Arginine repressor (ArgR), N-terminal DNA-binding domain [46792] (3)
    1. Arginine repressor (ArgR), N-terminal DNA-binding domain [46793]
      1. Escherichia coli [TaxId: 562] [46794] (1) picpic
      2. Bacillus stearothermophilus [TaxId: 1422] [46795] (1) picpic
      3. Bacillus subtilis [TaxId: 1423] [68966] (6) picpic
  4. Transcriptional repressor Rex, N-terminal domain [101007] (1)
    1. Transcriptional repressor Rex, N-terminal domain [101008]
      AT-rich DNA-binding protein p25
      1. Thermus aquaticus [TaxId: 271] [101009] (3) picpic
        SQ Q9X2V5; # CASP5
  5. CAP C-terminal domain-like [46796] (9)
    1. Catabolite gene activator protein (CAP), C-terminal domain [46797]
      N-terminal domain has double beta-helix fold
      1. Escherichia coli [TaxId: 562] [46798] (26) picpic
    2. CO-sensing protein CooA, C-terminal domain [46799]
      1. Rhodospirillum rubrum [TaxId: 1085] [46800] (1) picpic
    3. Listeriolysin regulatory protein PrfA, C-terminal domain [88975]
      1. Bacteria (Listeria monocytogenes) [TaxId: 1639] [88976] (11) picpic
    4. Transcriptional regulator PG0396, C-terminal domain [140229]
      1. Porphyromonas gingivalis [TaxId: 837] [140230] (1) picpic
        SQ Q7MAW7 152-232
    5. Probable transcription regulator BT4300, C-terminal domain [140231]
      1. Bacteroides thetaiotaomicron [TaxId: 818] [140232] (1) picpic
        SQ Q89ZS6 148-220
    6. Transcriptional regulator TTHA1359, C-terminal domain [140233]
      1. Thermus thermophilus [TaxId: 274] [140234] (1) picpic
        SQ Q5SIL0 118-199
    7. Cyclic AMP receptor-like protein Vfr [158266]
      1. Pseudomonas aeruginosa [TaxId: 287] [158267] (1) picpic
        SQ P55222 143-213
    8. Chlorophenol reduction protein CprK [158268]
      1. Desulfitobacterium dehalogenans [TaxId: 36854] [158269] (2) picpic
        SQ Q9LAS2 148-226
      2. Desulfitobacterium hafniense [TaxId: 49338] [158270] (7) picpic
        SQ Q18R04 148-227! SQ Q18R04 148-229
  6. Lrp/AsnC-like transcriptional regulator N-terminal domain [68967] (4)
    Swapped dimer with the "wing" C-terminal strands
    1. LprA [68968]
      1. Archaeon Pyrococcus furiosus [TaxId: 2261] [68969] (1) picpic
    2. Putative transcriptional regulator PH1519 [101010]
      archaeal feast/famine regulatory protein
      1. Archaeon Pyrococcus horikoshii [TaxId: 53953] [101011] (3) picpic
        identical sequence to Pyrococcus sp. ot3 protein
    3. Regulatory protein AsnC [140235]
      1. Escherichia coli [TaxId: 562] [140236] (2) picpic
        SQ P0ACI6 4-66
    4. Transcriptional regulator LrpC [140237]
      1. Bacillus subtilis [TaxId: 1423] [140238] (8) picpic
        SQ P96582 1-63
  7. ArsR-like transcriptional regulators [46801] (4)
    The N- and C-terminal helical extensions to the common fold form the dimer interface
    1. SmtB repressor [46802]
      1. Cyanobacteria (Synechococcus), pcc7942 [TaxId: 1129] [46803] (4) picpic
        SQ P30340
    2. Metal-sensing transcriptional repressor CzrA [109664]
      1. Staphylococcus aureus [TaxId: 1280] [109665] (2) picpic
        SQ O85142
    3. Putative arsenical resistance operon repressor AF0168 [116786]
      lacks the extra C-terminal helix
      1. Archaeoglobus fulgidus [TaxId: 2234] [116787] (1) picpic
        SQ O30069
    4. Cadmium efflux system accessory protein CadC [140239]
      1. Staphylococcus aureus [TaxId: 1280] [140240] (4) picpic
        SQ P20047 12-119
  8. Transcriptional regulator IclR, N-terminal domain [74676] (1)
    1. Transcriptional regulator IclR, N-terminal domain [74677]
      1. Thermotoga maritima [TaxId: 2336] [74678] (1) picpic
  9. MarR-like transcriptional regulators [63379] (20)
    The N- and C-terminal helical extensions to the common fold form the dimer interface
    1. Multiple antibiotic resistance repressor, MarR [68970]
      1. Escherichia coli [TaxId: 562] [68971] (1) picpic
    2. MexR repressor [81686]
      1. Pseudomonas aeruginosa [TaxId: 287] [81687] (1) picpic
    3. Transcriptional regulator SlyA [81688]
      1. Enterococcus faecalis [TaxId: 1351] [81689] (1) picpic
      2. Salmonella typhimurium [TaxId: 90371] [158271] (2) picpic
        SQ P40676 1-140
    4. Staphylococcal accessory regulator A homolog, SarR [63472]
      1. Staphylococcus aureus [TaxId: 1280] [63473] (1) picpic
    5. Staphylococcal accessory regulator A homolog, SarS [88977]
      duplication: tandem repeat of two SarR-like domains assembled together as in the SarR dimer
      1. Staphylococcus aureus [TaxId: 1280] [88978] (1) picpic
    6. Pleiotropic regulator of virulence genes, SarA [48292]
      closely related to SarR but adopts a different fold; possible experimental artifact?
      1. Staphylococcus aureus [TaxId: 1280] [48293] (5) picpic
    7. Putative transcriptional regulator YusO [101012]
      1. Bacillus subtilis [TaxId: 1423] [101013] (1) picpic
    8. Hypothetical protein PH1061 [101014]
      1. Archaeon Pyrococcus horikoshii [TaxId: 53953] [101015] (1) picpic
    9. Putative transcriptional regulator TM0816 [140241]
      1. Thermotoga maritima [TaxId: 2336] [140242] (2) picpic
        SQ Q9WZS3 1-140
    10. Probable transcriptional regulator PA3067 [140243]
      1. Pseudomonas aeruginosa [TaxId: 287] [140244] (4) picpic
        SQ Q9HZE1 2-146
    11. Probable transcriptional regulator PA4135 [140245]
      1. Pseudomonas aeruginosa [TaxId: 287] [140246] (1) picpic
        SQ Q9HWP6 5-140
    12. Organic hydroperoxide resistance transcriptional regulator OhrR [140247]
      1. Bacillus subtilis [TaxId: 1423] [140248] (7) picpic
        SQ O34777 8-144
    13. Transcriptional regulator PA3341 [140249]
      1. Pseudomonas aeruginosa [TaxId: 287] [140250] (1) picpic
        SQ Q9HYQ4 8-144
    14. Protease production regulatory protein Hpr [140251]
      1. Bacillus subtilis [TaxId: 1423] [140252] (4) picpic
        SQ P11065 6-167
    15. Transcriptional regulator TM0710 [140253]
      1. Thermotoga maritima [TaxId: 2336] [140254] (4) picpic
        SQ Q9WZG9 5-143
    16. Transcriptional regulator DR1159 [140255]
      1. Deinococcus radiodurans [TaxId: 1299] [140256] (2) picpic
        SQ Q9RV71 8-179
    17. Transcriptional regulator MgrA [158272]
      1. Staphylococcus aureus [TaxId: 1280] [158273] (1) picpic
        SQ Q7A1J9 6-141
    18. Ta1064 (RFK), N-terminal domain [158274]
      1. Thermoplasma acidophilum [TaxId: 2303] [158275] (1) picpic
        SQ Q9HJA6 5-89
    19. Transcriptional regulator OEOE1854 [158276]
      1. Oenococcus oeni [TaxId: 1247] [158277] (4) picpic
        SQ Q04CY6 3-137
  10. DNA-binding protein Mj223 [81690] (1)
    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
    1. DNA-binding protein Mj223 [81691]
      1. Archaeon Methanococcus jannaschii [TaxId: 2190] [81692] (1) picpic
  11. Penicillinase repressor [101016] (4)
    homologous to the MarR-like family in the DNA-binding region but has a different dimerisation subdomain
    1. Methicillin resistance regulatory protein MecI [101017]
      1. Staphylococcus aureus [TaxId: 1280] [101018] (8) picpic
    2. Penicillinase repressor BlaI [101019]
      1. Bacillus licheniformis [TaxId: 1402] [101020] (2) picpic
      2. Staphylococcus aureus [TaxId: 1280] [109666] (2) picpic
        SQ Q9K4N1
    3. Hypothetical protein Rv1846c [158278]
      MT1894
      1. Mycobacterium tuberculosis [TaxId: 1773] [158279] (2) picpic
        SQ P95163 3-124
  12. GntR-like transcriptional regulators [46804] (4)
    1. Fatty acid responsive transcription factor FadR, N-terminal domain [46805]
      1. Escherichia coli [TaxId: 562] [46806] (5) picpic
    2. Transcriptional repressor TraR, N-terminal domain [140257]
      1. Streptomyces sp. [TaxId: 1931] [140258] (1) picpic
        SQ Q54677 1-99
        78% identity to the UniProt entry species
    3. Transcriptional regulator YydK [158280]
      1. Bacillus subtilis [TaxId: 1423] [158281] (3) picpic
        SQ Q45591 5-82
    4. Putative transcriptional regulator RHA1_ro03477 [158282]
      1. Rhodococcus sp. RHA1 [TaxId: 101510] [158283] (1) picpic
        SQ Q0SB06 25-93
  13. N-terminal domain of Bacillus PurR [101021] (1)
    1. N-terminal domain of Bacillus PurR [101022]
      1. Bacillus subtilis [TaxId: 1423] [101023] (2) picpic
  14. Replication terminator protein (RTP) [46807] (1)
    1. Replication terminator protein (RTP) [46808]
      contains long helix in the C-terminal extension; forms dimer similar to the LysR-like dimer
      1. Bacillus subtilis [TaxId: 1423] [46809] (10) picpic
  15. LysR-like transcriptional regulators [88979] (2)
    contains long helix in the C-terminal extension; forms dimer similar to the RTP dimer
    1. LysR-type regulatory protein CbnR [88980]
      1. Ralstonia eutropha [TaxId: 106590] [88981] (2) picpic
    2. Probable LysR-type transcriptional regulator PA0477 [140259]
      1. Pseudomonas aeruginosa [TaxId: 287] [140260] (4) picpic
        SQ Q9I641 3-91
  16. N-terminal domain of molybdate-dependent transcriptional regulator ModE [46810] (1)
    contains beta-hairpin in the N-terminal extension and two helices in the C-terminal extension
    1. N-terminal domain of molybdate-dependent transcriptional regulator ModE [46811]
      1. Escherichia coli [TaxId: 562] [46812] (3) picpic
  17. Transcription factor MotA, activation domain [46813] (1)
    The N- and C-terminal helical extensions to the common fold form the dimer interface (distinct from that of ArsR-like family)
    1. Transcription factor MotA, activation domain [46814]
      1. Bacteriophage T4 [TaxId: 10665] [46815] (2) picpic
  18. Transcription factor E/IIe-alpha, N-terminal domain [101024] (1)
    contains extra N-terminal helix
    1. Transcription factor E/IIe-alpha, N-terminal domain [101025]
      1. Archaeon Sulfolobus solfataricus [TaxId: 2287] [101026] (1) picpic
  19. FUR-like [101027] (1)
    contains extra N-terminal helix and an alpha+beta dimerisation subdomain
    1. Ferric uptake regulation protein, FUR [101028]
      1. Pseudomonas aeruginosa [TaxId: 287] [101029] (1) picpic
  20. Replication initiation protein [46816] (3)
    duplication: tandem repeat of two "winged helix" domains arranged with the pseudo twofold symmetry
    1. RepE54 [46817]
      1. Escherichia coli, mini-F plasmid [TaxId: 562] [46818] (5) picpic
    2. Replication protein A, repA [88982]
      1. Pseudomonas syringae pv. savastanoi [TaxId: 29438] [88983] (1) picpic
    3. Replication initiation protein PI [158284]
      1. Escherichia coli [TaxId: 562] [158285] (2) picpic
        SQ P03067 152-268! SQ P03067 9-151
  21. Helicase DNA-binding domain [46819] (5)
    follows the extended AAA-ATPase domain
    1. Holliday junction helicase RuvB [46820]
      1. Thermus thermophilus [TaxId: 274] [46821] (3) picpic
      2. Thermotoga maritima [TaxId: 2336] [63474] (6) picpic
    2. CDC6, C-terminal domain [46822]
      contains the N- and C-terminal helical extensions to the common fold
      1. Archaeon Pyrobaculum aerophilum [TaxId: 13773] [46823] (1) picpic
    3. CDC6-like protein APE0152, C-terminal domain [116788]
      1. Aeropyrum pernix [TaxId: 56636] [116789] (2) picpic
        SQ Q9YFU8
    4. Hypothetical protein SSO1545, C-terminal domain [140261]
      1. Sulfolobus solfataricus [TaxId: 2287] [140262] (2) picpic
        SQ Q97Y08 284-356
  22. RecQ helicase DNA-binding domain-like [101030] (3)
    follows the tandem AAA-ATPase domain
    1. DNA helicase RecQ DNA-binding domain [101031]
      1. Escherichia coli [TaxId: 562] [101032] (2) picpic
    2. Werner syndrome ATP-dependent helicase WRN [140263]
      1. Human (Homo sapiens) [TaxId: 9606] [140264] (1) picpic
        SQ Q14191 949-1092
    3. Hel308 helicase [158286]
      1. Archaeoglobus fulgidus [TaxId: 2234] [158287] (2) picpic
  23. SCF ubiquitin ligase complex WHB domain [74679] (4)
    1. Anaphase promoting complex (APC) [74680]
      1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [74681] (1) picpic
      2. Human (Homo sapiens) [TaxId: 9606] [74682] (3) picpic
        SQ Q13616 17-776
    2. Cullin-3 homologue [101033]
      1. Mouse (Mus musculus) [TaxId: 10090] [101034] (1) picpic
    3. Cullin-4A [158288]
      1. Human (Homo sapiens) [TaxId: 9606] [158289] (1) picpic
        SQ Q13619 676-759
  24. C-terminal fragment of elongation factor SelB [74683] (1)
    1. C-terminal fragment of elongation factor SelB [74684]
      duplication: tandem repeat of four "winged helix" domains
      1. Moorella thermoacetica [TaxId: 1525] [74685] (21) picpic
  25. Restriction endonuclease FokI, N-terminal (recognition) domain [46824] (1)
    1. Restriction endonuclease FokI, N-terminal (recognition) domain [46825]
      duplication: consists of three elaborated "winged helix" domains
      1. Flavobacterium okeanokoites [TaxId: 244] [46826] (2) picpic
  26. TnsA endonuclease, C-terminal domain [46782] (1)
    1. TnsA endonuclease, C-terminal domain [46783]
      1. Escherichia coli [TaxId: 562] [46784] (2) picpic
        SQ P13988
  27. Plant O-methyltransferase, N-terminal domain [63475] (5)
    unknown function
    1. Chalcone O-methyltransferase [63476]
      1. Alfalfa (Medicago sativa) [TaxId: 3879] [63477] (2) picpic
    2. Isoflavone O-methyltransferase [63478]
      1. Alfalfa (Medicago sativa) [TaxId: 3879] [63479] (2) picpic
    3. Caffeic acid/5-hydroxyferulic acid 3/5-O-methyltransferase [74686]
      1. Alfalfa (Medicago sativa) [TaxId: 3879] [74687] (2) picpic
    4. Aclacinomycin-10-hydroxylase RdmB [101035]
      evolved a different function; binds SAM and SAH
      1. Streptomyces purpurascens [TaxId: 1924] [101036] (4) picpic
        SQ Q54527
    5. Carminomycin 4-O-methyltransferase [109667]
      1. Streptomyces peucetius [TaxId: 1950] [109668] (2) picpic
        SQ Q06528
  28. Linker histone H1/H5 [46827] (3)
    1. Histone H5, globular domain [46828]
      1. Chicken (Gallus gallus) [TaxId: 9031] [46829] (1) picpic
    2. Histone H1, globular domain [46830]
      1. Chicken (Gallus gallus) [TaxId: 9031] [46831] (1) picpic
    3. Histone H1 homologue Hho1p [101037]
      duplication: contains two similar globular domains
      1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [101038] (4) picpic
  29. Forkhead DNA-binding domain [46832] (6)
    1. Afx (Foxo4) [46833]
      1. Human (Homo sapiens) [TaxId: 9606] [46834] (2) picpic
    2. Adipocyte-transcription factor FREAC-11 (s12, fkh-14) [46835]
      1. Human (Homo sapiens) [TaxId: 9606] [46836] (1) picpic
    3. Interleukin enhancer binding factor [88984]
      1. Human (Homo sapiens) [TaxId: 9606] [88985] (3) picpic
    4. Genesis [46837]
      1. Rat (Rattus norvegicus) [TaxId: 10116] [46838] (2) picpic
    5. HFH-1 (HNF-3 forkhead homolog-1) [46839]
      1. Rat (Rattus norvegicus) [TaxId: 10116] [46840] (1) picpic
    6. Forkhead box protein P2, FOXP2 [140265]
      1. Human (Homo sapiens) [TaxId: 9606] [140266] (8) picpic
        SQ O15409 503-584
  30. DNA-binding domain from rap30 [46841] (1)
    1. DNA-binding domain from rap30 [46842]
      1. Human (Homo sapiens) [TaxId: 9606] [46843] (2) picpic
  31. C-terminal domain of the rap74 subunit of TFIIF [63480] (1)
    1. C-terminal domain of the rap74 subunit of TFIIF [63481]
      peptide-recognition motif
      1. Human (Homo sapiens) [TaxId: 9606] [63482] (4) picpic
  32. C-terminal domain of RPA32 [46844] (1)
    1. C-terminal domain of RPA32 [46845]
      peptide-recognition motif
      1. Human (Homo sapiens) [TaxId: 9606] [46846] (2) picpic
  33. DEP domain [63483] (5)
    membrane-binding domain
    1. Segment polarity protein Dishevelled-1 [63484]
      1. Mouse (Mus musculus) [TaxId: 10090] [63485] (1) picpic
    2. Regulatory domain of epac2, domain 2 [81693]
      1. Mouse (Mus musculus) [TaxId: 10090] [81694] (1) picpic
    3. Pleckstrin [101039]
      1. Mouse (Mus musculus) [TaxId: 10090] [101040] (1) picpic
      2. Human (Homo sapiens) [TaxId: 9606] [116790] (2) picpic
        SQ P08567 125-219 # structure of the N-terminal PH domain (1-105) is also known (scop_sp 50741)
    4. Pleckstrin 2 [101041]
      1. Mouse (Mus musculus) [TaxId: 10090] [101042] (1) picpic
  34. Cell cycle transcription factor e2f-dp [46847] (2)
    heterodimer of two homologous chains
    1. Cell cycle transcription factor E2F-4 [88652]
      1. Human (Homo sapiens) [TaxId: 9606] [88653] (1) picpic
    2. Cell cycle transcription factor DP-2 [88654]
      1. Human (Homo sapiens) [TaxId: 9606] [88655] (1) picpic
  35. The central core domain of TFIIE beta [46850] (1)
    1. The central core domain of TFIIE beta [46851]
      1. Human (Homo sapiens) [TaxId: 9606] [46852] (2) picpic
  36. Z-DNA binding domain [46853] (4)
    Pfam 02295
    1. Z-alpha domain of dsRNA-specific adenosine deaminase, ADAR1 [46854]
      1. Human (Homo sapiens) [TaxId: 9606] [46855] (9) picpic
    2. Dlm-1 [63486]
      1. Mouse (Mus musculus) [TaxId: 10090] [63487] (1) picpic
    3. dsRNA-binding protein E3 (E3L) [101043]
      1. Vaccinia virus [TaxId: 10245] [101044] (1) picpic
    4. 34L [109669]
      1. Yaba-like disease virus, YLDV [TaxId: 132475] [109670] (1) picpic
        SQ Q9DHS8 1-75
  37. P4 origin-binding domain-like [46856] (2)
    C-terminus passes through the first loop
    1. Class II MHC transcription factor RFX1 [46857]
      1. Human (Homo sapiens) [TaxId: 9606] [46858] (1) picpic
    2. P4 origin-binding domain [74688]
      1. Bacteriophage P4 [TaxId: 10680] [74689] (1) picpic
  38. ets domain [46859] (9)
    1. Fli-1 [46860]
      1. Human (Homo sapiens) [TaxId: 9606] [46861] (1) picpic
    2. ETS-1 transcription factor, residues 331-440 [46862]
      1. Mouse (Mus musculus) [TaxId: 10090] [46863] (6) picpic
        SQ P27577 301-440
      2. Human (Homo sapiens) [TaxId: 9606] [46864] (3) picpic
    3. Transcription factor PU.1, residues 171-259 [46865]
      1. Mouse (Mus musculus) [TaxId: 10090] [46866] (1) picpic
    4. GA binding protein (GABP) alpha [46867]
      1. Mouse (Mus musculus) [TaxId: 10090] [46868] (1) picpic
    5. Serum response factor accessory protein 1a, SAP-1 [46869]
      1. Human (Homo sapiens) [TaxId: 9606] [46870] (4) picpic
    6. Elk-1 [46871]
      1. Human (Homo sapiens) [TaxId: 9606] [46872] (1) picpic
    7. Sam pointed domain containing ets transcription SPDEF [140267]
      1. Human (Homo sapiens) [TaxId: 9606] [140268] (1) picpic
        SQ O95238 247-334
    8. E74-like factor 5 ese-2b [140269]
      1. Human (Homo sapiens) [TaxId: 9606] [140270] (1) picpic
        SQ Q9UKW6 173-265
  39. Heat-shock transcription factor [46873] (2)
    1. Heat-shock transcription factor [46874]
      1. Drosophila melanogaster [TaxId: 7227] [46875] (2) picpic
      2. Milk yeast (Kluyveromyces lactis) [TaxId: 28985] [46876] (9) picpic
  40. Interferon regulatory factor [46877] (3)
    Pfam 00605
    1. Interferon regulatory factor 1 (IRF-1) [46878]
      1. Mouse (Mus musculus) [TaxId: 10090] [46879] (1) picpic
    2. Interferon regulatory factor-2, IRF-2 [46880]
      1. Mouse (Mus musculus) [TaxId: 10090] [46881] (3) picpic
    3. Interferon regulatory factor 3, IRF-3 [116791]
      1. Human (Homo sapiens) [TaxId: 9606] [116792] (9) picpic
        SQ Q14653 3-112
  41. 39 kda initiator binding protein, IBP39, N-terminal domain [101045] (1)
    1. 39 kda initiator binding protein, IBP39, N-terminal domain [101046]
      1. Trichomonas vaginalis [TaxId: 5722] [101047] (2) picpic
  42. Iron-dependent repressor protein [46882] (3)
    1. Diphtheria toxin repressor (DtxR) [46883]
      1. Corynebacterium diphtheriae [TaxId: 1717] [46884] (17) picpic
        SQ P33120
    2. Iron-dependent regulator IdeR [46885]
      1. Mycobacterium tuberculosis [TaxId: 1773] [46886] (13) picpic
        SQ Q50495
    3. Manganese transport regulator MntR [88986]
      1. Bacillus subtilis [TaxId: 1423] [88987] (20) picpic
  43. Dissimilatory sulfite reductase DsvD [101048] (1)
    1. Dissimilatory sulfite reductase DsvD [101049]
      1. Desulfovibrio vulgaris [TaxId: 881] [101050] (3) picpic
  44. La domain [101051] (3)
    Pfam 05383; RNA-binding domain
    1. Lupus La autoantigen N-terminal domain [101052]
      1. Human (Homo sapiens) [TaxId: 9606] [101053] (12) picpic
      2. Trypanosoma brucei [TaxId: 5691] [101054] (1) picpic
    2. La-related protein 4 LARP4 [140271]
      C-mpl binding protein
      1. Human (Homo sapiens) [TaxId: 9606] [140272] (1) picpic
        SQ Q71RC2 112-199
  45. Methionine aminopeptidase, insert domain [46887] (2)
    circularly permuted version of the "winged helix" fold
    1. Methionine aminopeptidase, insert domain [46888]
      1. Archaeon Pyrococcus furiosus [TaxId: 2261] [46889] (4) picpic
      2. Human (Homo sapiens) [TaxId: 9606] [46890] (18) picpic
        SQ P50579 110-478
  46. PCI domain (PINT motif) [109671] (2)
    Pfam 01399
    1. COP9 signalosome complex subunit 4, GSN4 [109672]
      1. Mouse (Mus musculus) [TaxId: 10090] [109673] (1) picpic
        SQ O88544 296-366
    2. Hypothetical protein C20orf116 homolog [116793]
      1. Mouse (Mus musculus) [TaxId: 10090] [116794] (1) picpic
        SQ Q80WW9 216-274
  47. F93-like [109674] (3)
    contains long helix in the C-terminal extension; forms dimer similar to the RTP and LysR dimers
    1. Hypothetical protein F93 [109675]
      1. Sulfolobus virus-like particle SSV1 [TaxId: 244589] [109676] (1) picpic
        SQ P20222
    2. Uncharacterized protein APE0880.1 [158290]
      1. Aeropyrum pernix [TaxId: 56636] [158291] (2) picpic
        SQ Q9YDN4 1-92
    3. STIV F93 [158292]
      different dimerization mode than SSV1 F93
      1. Sulfolobus turreted icosahedral virus [TaxId: 269145] [158293] (2) picpic
        SQ Q6Q0J9 5-93
  48. Archaeal DNA-binding protein [109677] (1)
    contains long helix in the C-terminal extension; forms dimer similar to the RTP and LysR dimers
    1. Sso10a (SSO10449) [109678]
      1. Archaeon Sulfolobus solfataricus [TaxId: 2287] [109679] (3) picpic
        SQ Q5W1E8
  49. TrmB-like [109680] (2)
    The N- and C-terminal helical extensions to the common fold form the dimer interface, distinct from other known families
    1. Hypothetical protein AF2008 [109681]
      1. Archaeoglobus fulgidus [TaxId: 2234] [109682] (1) picpic
        SQ O28271
    2. Hypothetical transcriptional regulator ST1889 [140273]
      1. Sulfolobus tokodaii [TaxId: 111955] [140274] (2) picpic
        SQ Q96ZE4 1-109
  50. Heat-inducible transcription repressor HrcA, N-terminal domain [109683] (1)
    similar domain organization to the transcriptional regulator IclR
    1. Heat-inducible transcription repressor HrcA, N-terminal domain [109684]
      1. Thermotoga maritima [TaxId: 2336] [109685] (1) picpic
        SQ Q9WZV5
  51. DNA replication factor Cdt1 [109686] (1)
    1. DNA replication factor Cdt1 [109687]
      1. Mouse (Mus musculus) [TaxId: 10090] [109688] (1) picpic
        SQ Q8R4E9 179-365
  52. Eukaryotic translation initiation factor 3 subunit 12, eIF3k, C-terminal domain [109689] (1)
    C-terminal part of Pfam 06272
    1. Eukaryotic translation initiation factor 3 subunit 12, eIF3k, C-terminal domain [109690]
      1. Human (Homo sapiens) [TaxId: 9606] [109691] (1) picpic
        SQ Q9UBQ5
  53. Vacuolar sorting protein domain [109692] (3)
    duplication: tandem repeat of two "winged-helix" domains
    1. Vacuolar sorting protein SNF8 [109693]
      1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [109694] (2) picpic
        SQ Q12483 20-232
    2. Vacuolar protein sorting-associated protein VPS36 [109695]
      1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [109696] (2) picpic
        SQ Q06696 396-566
    3. Vacuolar protein sorting-associated protein VPS25 [109697]
      1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [109698] (10) picpic
        SQ P47142
  54. Transcriptional regulator Rrf2 [109699] (2)
    Pfam 02082
    1. Hypothetical protein ywnA [109700]
      1. Bacillus subtilis [TaxId: 1423] [109701] (1) picpic
        SQ P71036 4-130
    2. Hypothetical protein BC1842 [140275]
      1. Bacillus cereus [TaxId: 1396] [140276] (3) picpic
        SQ Q81EX1 5-142
  55. Rio2 serine protein kinase N-terminal domain [109702] (1)
    1. Rio2 serine protein kinase N-terminal domain [109703]
      1. Archaeoglobus fulgidus [TaxId: 2234] [109704] (5) picpic
        SQ O30245 # AF2426
  56. Rad21/Rec8-like [116795] (1)
    Pfam 04824
    1. Sister chromatid cohesion protein 1 (SCC1), C-terminal domain [116796]
      1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [116797] (1) picpic
        SQ Q12158 483-561
  57. Hypothetical protein PH1932 [116798] (1)
    contains new dimerisation all-alpha C-terminal subdomain
    1. Hypothetical protein PH1932 [116799]
      1. Pyrococcus horikoshii [TaxId: 53953] [116800] (2) picpic
        SQ O59595
  58. An Obfc1 domain [116801] (1)
    helix-loop insertion in the HTH motif
    1. OB fold-containing protein 1, Obfc1 [116802]
      1. Mouse (Mus musculus) [TaxId: 10090] [116803] (1) picpic
        SQ Q8K2X3 198-304
  59. ScpB/YpuH-like [116804] (1)
    Pfam 04079
    duplication: tandem repeat of two 'winged helix' domains; forms a dimer via the C-terminal domain
    1. Segregation and condensation protein B, ScpB [116805]
      1. Chlorobium tepidum [TaxId: 1097] [116806] (1) picpic
        SQ Q8KF54 1-162
  60. PadR-like [116807] (3)
    Pfam 03551; related to the MarR-like family (Pfam 01047)
    1. Predicted transcriptional regulator [116808]
      monomeric
      1. Clostridium thermocellum [TaxId: 1515] [116809] (1) picpic
        SQ Q4CEJ8 4-106
    2. Hypothetical protein AphA [116810]
      contains extra C-terminal dimerisation domain
      1. Vibrio cholerae [TaxId: 666] [116811] (1) picpic
        SQ Q9X399 # "winged helix" domain: 1-87, dimerisation domain: 91-179
    3. Hypothetical protein TM0937 [140277]
      1. Thermotoga maritima [TaxId: 2336] [140278] (1) picpic
        SQ Q9X035 4-117
  61. Hypothetical protein YhgG [116812] (1)
    1. Hypothetical protein YhgG [116813]
      1. Escherichia coli [TaxId: 562] [116814] (1) picpic
        SQ P64638
  62. ROK associated domain [140279] (3)
    found N-terminal to ROK domain in some proteins
    1. Mlc protein N-terminal domain [140280]
      1. Escherichia coli [TaxId: 562] [140281] (6) picpic
        SQ P50456 12-81
    2. N-acetylglucosamine kinase [140282]
      Transcriptional regulator, XylR-related
      1. Thermotoga maritima [TaxId: 2336] [140283] (1) picpic
        SQ Q9X0V1 10-71
    3. Transcriptional regulator VC2007 N-terminal domain [140284]
      1. Vibrio cholerae [TaxId: 666] [140285] (1) picpic
        SQ Q9KQJ1 10-80
  63. PF1790-like [140286] (1)
    sequence similarity to PH1932 in the N-terminal domain; the C-terminal domain provides new dimerisation interface made of a beta-hairpin and a coiled coil
    1. Transcriptional regulatory protein PF1790 [140287]
      1. Pyrococcus furiosus [TaxId: 2261] [140288] (2) picpic
        SQ Q8U030 1-194
  64. MukF N-terminal domain-like [140289] (1)
    N-terminal part of Pfam 03882
    1. Chromosome partition protein MukF (KicB), N-terminal domain [140290]
      1. Escherichia coli [TaxId: 562] [140291] (2) picpic
        SQ P60293 8-118
  65. CodY HTH domain [140292] (1)
    Pfam 08222
    1. GTP-sensing transcriptional pleiotropic repressor CodY, C-terminal domain [140293]
      1. Bacillus subtilis [TaxId: 1423] [140294] (3) picpic
        SQ P39779 167-257
  66. FtsK C-terminal domain-like [140295] (2)
    PfamB 000224
    1. DNA translocase FtsK [140296]
      1. Escherichia coli [TaxId: 562] [140297] (1) picpic
        SQ P46889 1261-1329
      2. Pseudomonas aeruginosa [TaxId: 287] [140298] (15) picpic
        SQ Q9I0M3 742-811
  67. Nudix-associated domain [140299] (2)
    PfamB 002148; this domain is C-terminal to the Nudix domain in some bacterial proteins
    1. Hypothetical protein BT0354, C-terminal domain [140300]
      1. Bacteroides thetaiotaomicron [TaxId: 818] [140301] (4) picpic
        SQ Q8AAV8 150-225
    2. Hypothetical protein EF2700, C-terminal domain [140302]
      1. Enterococcus faecalis [TaxId: 1351] [140303] (2) picpic
        SQ Q830S2 205-268
  68. HxlR-like [140304] (5)
    Pfam 01638; DUF24; the N- and C-terminal helical extensions to the common fold form the dimer interface similar to that of the ArsR-like family (scop_fa 46801)
    1. Hypothetical protein PG0823 [140305]
      1. Porphyromonas gingivalis [TaxId: 837] [140306] (2) picpic
        SQ Q7M7B7 3-104
    2. Hypothetical protein PA1607 [140307]
      includes extra C-terminal SH3-like subdomain, which is segment-swapped in the dimer
      1. Pseudomonas aeruginosa [TaxId: 287] [140308] (2) picpic
        SQ Q9I3B4 5-146
    3. Hypothetical protein EF0647 [140309]
      1. Enterococcus faecalis [TaxId: 1351] [140310] (2) picpic
        SQ Q838C3 1-108
    4. Putative transcriptional regulator YtfH [140311]
      1. Salmonella typhimurium [TaxId: 90371] [140312] (2) picpic
        SQ Q7CP90 9-122
    5. Putative transcriptional regulator YtcD [158294]
      1. Bacillus subtilis [TaxId: 1423] [158295] (4) picpic
        SQ O34533 10-104
  69. Marine metagenome family WH1 [158296] (1)
    1. Hypothetical protein GOS_3836187 [158297]
      1. Environmental samples [158298] (1) picpic
        marine metagenome
  70. ReutB4095-like [158299] (1)
    probable biological unit is a homohexamer
    1. Putative DNA-binding protein ReutB4095 [158300]
      1. Ralstonia eutropha [TaxId: 106590] [158301] (2) picpic
        SQ Q46TT3 12-92
  71. PH0730 N-terminal domain-like [158302] (1)
    1. Hypothetical protein PH0730 [158303]
      1. Pyrococcus horikoshii [TaxId: 53953] [158304] (1) picpic
        SQ O58461 28-96
  72. FaeA-like [158305] (1)
    Pfam 04703
    1. P fimbrial regulatory protein PapI [158306]
      KS71A
      1. Escherichia coli [TaxId: 562] [158307] (1) picpic
        SQ P62584 5-77
  73. STY4665 C-terminal domain-like [158308] (1)
    Pfam 07515; DUF1528; the "wing" hairpin, linker between helices 1 and 2 and the C-terminal tail together form an open beta-sheet barrel
    1. Hypothetical protein STY4665 [158309]
      1. Salmonella typhi [TaxId: 90370] [158310] (1) picpic
        SQ Q8Z1C5 396-528
  74. PSPTO2686-like [158311] (1)
    Pfam 04337; DUF480; duplication: two "winged helix" domains are tightly packed "back-to-back" about pseudo twofold axis
    1. Hypothetical protein PSPTO2686 [158312]
      1. Pseudomonas syringae pv. tomato [TaxId: 323] [158313] (2) picpic
        SQ Q882E2 13-96! SQ Q882E2 97-180
  75. RHA1_ro06458-like [158314] (1)
    1. Hypothetical protein RHA1_ro06458 [158315]
      1. Rhodococcus sp. RHA1 [TaxId: 101510] [158316] (1) picpic
        SQ Q0S2K3 1-85
  76. YjcQ-like [158317] (1)
    Pfam 09639
    1. Uncharacterized protein YjcQ [158318]
      1. Bacillus subtilis [TaxId: 1423] [158319] (1) picpic
        SQ O31639 5-82
  77. F112-like [158320] (1)
    1. F-112 [158321]
      1. Sulfolobus virus-like particle SSV1 [TaxId: 244589] [158322] (1) picpic
        SQ P20220 4-73
  78. MerB N-terminal domain-like [158323] (1)
    1. Alkylmercury lyase MerB [158324]
      1. Escherichia coli [TaxId: 562] [158325] (1) picpic
        SQ P77072 21-80
  79. CED-4 C-terminal domain-like [158326] (1)
    similar domain architecture to AAA+ helicases
    1. Cell death protein 4, CED-4 [158327]
      1. Caenorhabditis elegans [TaxId: 6239] [158328] (1) picpic
        SQ P30429 386-543
  80. ELL N2 domain-like [158329] (1)
    PfamB 026212; includes recent PDB entry 2e5n
    1. RNA polymerase II elongation factor ELL [158330]
      1. Human (Homo sapiens) [TaxId: 9606] [158331] (1) picpic
        SQ P55199 197-297
  81. PF0610-like [158332] (1)
    PfamB 016993; insertion of a zinc-ribbon subdomain in the beta-hairpin "wing"
    1. Hypothetical protein PF0610 [158333]
      1. Pyrococcus furiosus [TaxId: 2261] [158334] (1) picpic
        SQ Q8U362 1-105
  82. Rv2827c N-terminal domain-like [158335] (1)
    ~80 N-terminal residues of Pfam 09407' DUF2005
    1. Hypothetical protein Rv2827c [158336]
      1. Mycobacterium tuberculosis [TaxId: 1773] [158337] (2) picpic
        SQ P71625 1-82
  83. Rps19E-like [158338] (1)
    Pfam 01090; local sequence similarity to members of the GntR-like family
    1. Ribosomal protein S19e [158339]
      1. Pyrococcus abyssi [TaxId: 29292] [158340] (1) picpic
        SQ Q9V0G8 2-150
  84. RPO3F domain-like [158341] (2)
    middle region of Pfam 05158
    1. DNA-directed RNA polymerase III subunit RPC6, RPO3F [158342]
      1. Mouse (Mus musculus) [TaxId: 10090] [158343] (1) picpic
        SQ Q921X6 11-79
      2. Human (Homo sapiens) [TaxId: 9606] [158344] (1) picpic
        SQ Q9H1D9 78-155
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MRC site 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