Structural Classification of Proteins
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Fold: SAM domain-like

4-5 helices; bundle of two orthogonally packed alpha-hairpins; involved in the interactions with DNA and proteins

Lineage:

  1. Root: scop
  2. Class: All alpha proteins [46456]
  3. Fold: SAM domain-like [47768]
    4-5 helices; bundle of two orthogonally packed alpha-hairpins; involved in the interactions with DNA and proteins

Superfamilies:

  1. SAM/Pointed domain [47769] (3)
    link to SUPERFAMILY database - Superfamily
    1. Pointed domain [47770] (7)
      1. Ets-1 transcription factor pointed domain [47771]
        1. Mouse (Mus musculus) [TaxId: 10090] [47772] (1) picpic
      2. Etv6 transcription factor pointed domain (Tel SAM) [74735]
        1. Human (Homo sapiens) [TaxId: 9606] [74736] (2) picpic
        2. Escherichia coli [TaxId: 562] [158525] (2) picpic
      3. Ets DNA-binding protein pokkuri (Yan) [109863]
        1. Fruit fly (Drosophila melanogaster) [TaxId: 7227] [109864] (2) picpic
          SQ Q01842 42-118
      4. Modulator of the activity of Ets (MAE, CG15085-PA) [109865]
        1. Fruit fly (Drosophila melanogaster) [TaxId: 7227] [109866] (1) picpic
          SQ Q9I7G2 94-173
      5. GABP-alpha subunit [109867]
        1. Mouse (Mus musculus) [TaxId: 10090] [109868] (1) picpic
          SQ Q00422 168-254 # structure of the Ets domain (320-429) is also known (scop_sp 46868)
      6. Transcriptional regulator ERG [109869]
        1. Human (Homo sapiens) [TaxId: 9606] [109870] (1) picpic
          SQ P11308 115-208
    2. SAM (sterile alpha motif) domain [47773] (16)
      1. EphA4 receptor tyrosine kinases [47774]
        1. Mouse (Mus musculus) [TaxId: 10090] [47775] (1) picpic
      2. EphB2 receptor [47776]
        1. Human (Homo sapiens) [TaxId: 9606] [47777] (2) picpic
        2. Chicken (Gallus gallus) [TaxId: 9031] [47778] (1) picpic
      3. C-terminal domain of p73 [47779]
        1. Human (Homo sapiens) [TaxId: 9606] [47780] (2) picpic
      4. Polyhomeotic [74737]
        1. Drosophila melanogaster [TaxId: 7227] [74738] (3) picpic
      5. RNA-binding protein Smaug [89075]
        1. Drosophila melanogaster [TaxId: 7227] [89076] (1) picpic
      6. Ephrin type-A receptor 8, C-terminal domain [101242]
        1. Human (Homo sapiens) [TaxId: 9606] [101243] (1) picpic
      7. Ste50p, N-terminal domain [101244]
        1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [101245] (2) picpic
      8. Serine/threonine-protein kinase ste11 [101246]
        1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [101247] (3) picpic
      9. Sam-domain protein samsn-1 [101248]
        1. Mouse (Mus musculus) [TaxId: 10090] [101249] (1) picpic
      10. C-terminal domain of p63 [116934]
        1. Human (Homo sapiens) [TaxId: 9606] [116935] (1) picpic
          SQ Q9H3D4 544-610
      11. Sh3 and multiple ankyrin repeat domains 3 (Shank3) [140616]
        1. Rat(Rattus norvegicus) [TaxId: 10116] [140617] (6) picpic
          SQ Q9JLU4 1749-1815
      12. Connector enhancer of kinase suppressor of Ras 1, CNK1 [140618]
        1. Human (Homo sapiens) [TaxId: 9606] [140619] (1) picpic
          SQ Q969H4 1-78
      13. Polycomb protein Scm [140620]
        1. Fruit fly (Drosophila melanogaster) [TaxId: 7227] [140621] (5) picpic
          SQ Q9VHA0 795-871
      14. Sphingomyelin synthase 1, SMS1 [140622]
        Phosphatidylcholine:ceramide cholinephosphotransferase 1
        1. Mouse (Mus musculus) [TaxId: 10090] [140623] (1) picpic
          SQ Q8VCQ6 1-84
      15. Centaurin-delta 1 (Arap2) [140624]
        1. Human(Homo sapiens) [TaxId: 9606] [140625] (1) picpic
          SQ Q8WZ64 1-78
    3. Variant SAM domain [158526] (2)
      shares a sequence motif with Pfam 07647, but has a distinct packing of helices
      1. Deleted in Liver Cancer 2, DLC2 [158527]
        1. Human (Homo sapiens) [TaxId: 9606] [158528] (2) picpic
          SQ Q9Y3M8 50-120
      2. Deleted in liver cancer 1 protein, DLC-1 [158529]
        1. Human (Homo sapiens) [TaxId: 9606] [158530] (2) picpic
          SQ Q96QB1 1-76! SQ Q96QB1 1-78
  2. RuvA domain 2-like [47781] (7)
    duplication: contains two helix-hairpin-helix (HhH) motifs
    link to SUPERFAMILY database - Superfamily
    1. DNA helicase RuvA subunit, middle domain [47782] (3)
      1. DNA helicase RuvA subunit, middle domain [47783]
        tetramer; binds Holliday junction
        1. Escherichia coli [TaxId: 562] [47784] (5) picpic
        2. Mycobacterium leprae [TaxId: 1769] [47785] (1) picpic
        3. Thermus thermophilus [TaxId: 274] [81794] (1) picpic
    2. Excinuclease UvrC C-terminal domain [81795] (1)
      1. Excinuclease UvrC C-terminal domain [81796]
        1. Escherichia coli [TaxId: 562] [81797] (1) picpic
    3. NAD+-dependent DNA ligase, domain 3 [47786] (1)
      1. NAD+-dependent DNA ligase, domain 3 [47787]
        duplication: consists of two RuvA-like domains (four HhH motifs); also contains a zinc-finger subdomain
        1. Thermus filiformis [TaxId: 276] [47788] (2) picpic
    4. Topoisomerase V repeat domain [140626] (1)
      1. Topoisomerase V [140627]
        1. Methanopyrus kandleri [TaxId: 2320] [140628] (4) picpic
          SQ Q977W1 294-350! SQ Q977W1 351-409! SQ Q977W1 410-464! SQ Q977W1 465-519
    5. Hef domain-like [140629] (4)
      helicase/nuclease domain; forms homo and heterodimers; probably includes the Excinuclease UvrC C-terminal domain (scop_fa 81795, that contains a single NMR structure of a monomeric truncated domain, 1kft)
      1. DNA excision repair protein ERCC-1 [140630]
        1. Human (Homo sapiens) [TaxId: 9606] [140631] (2) picpic
          SQ P07992 219-296! SQ P07992 220-297
      2. ATP-dependent RNA helicase PF2015 [140632]
        1. Pyrococcus furiosus [TaxId: 2261] [140633] (2) picpic
          SQ Q8TZH8 694-761
      3. DNA repair endonuclease XPF [140634]
        1. Aeropyrum pernix [TaxId: 56636] [140635] (6) picpic
          SQ Q9YC15 160-229
        2. Human (Homo sapiens) [TaxId: 9606] [140636] (4) picpic
          SQ Q92889 823-905! SQ Q92889 837-898
    6. Tex HhH-containing domain-like [158531] (1)
      tandem repeat of two Ruva_2-like domains
      1. Transcriptional accessory factor Tex [158532]
        1. Pseudomonas aeruginosa [TaxId: 287] [158533] (6) picpic
          SQ Q9HTY8 474-563! SQ Q9HTY8 564-636
    7. ComEA-like [158534] (2)
      sequence similarity to the HhH-motif domains of the PsbU-like and Tex-like families
      1. Uncharacterized protein TTHA1967 [158535]
        1. Thermus thermophilus [TaxId: 274] [158536] (1) picpic
          SQ Q5SGW3 11-75
      2. KIF22, C-terminal domain [158537]
        1. Human (Homo sapiens) [TaxId: 9606] [158538] (1) picpic
          SQ Q14807 570-660
  3. C-terminal domain of RNA polymerase alpha subunit [47789] (1)
    contains one classic and one pseudo HhH motifs
    link to SUPERFAMILY database - Superfamily
    1. C-terminal domain of RNA polymerase alpha subunit [47790] (3)
      1. C-terminal domain of RNA polymerase alpha subunit [47791]
        1. Escherichia coli [TaxId: 562] [47792] (2) picpic
        2. Thermus thermophilus [TaxId: 274] [47793] (1) picpic
        3. Bacillus subtilis [TaxId: 1423] [140637] (1) picpic
          SQ P20429 245-311
  4. Rad51 N-terminal domain-like [47794] (3)
    contains one classic and one pseudo HhH motifs
    link to SUPERFAMILY database - Superfamily
    1. DNA repair protein Rad51, N-terminal domain [47795] (4)
      1. DNA repair protein Rad51, N-terminal domain [47796]
        1. Human (Homo sapiens) [TaxId: 9606] [47797] (1) picpic
        2. Archaeon Pyrococcus furiosus [TaxId: 2261] [101250] (1) picpic
        3. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [109871] (1) picpic
          SQ P25454 81-395
        4. Archaeon Methanococcus voltae [TaxId: 2188] [109872] (7) picpic
          SQ O73948
    2. NusA extra C-terminal domains [109873] (1)
      1. Transcription elongation protein NusA [109874]
        1. Escherichia coli [TaxId: 562] [109875] (2) picpic
          SQ P03003 352-419
    3. Hypothetical protein AF1548, C-terminal domain [116936] (1)
      1. Hypothetical protein AF1548, C-terminal domain [116937]
        1. Archaeoglobus fulgidus [TaxId: 2234] [116938] (1) picpic
          SQ 28724
  5. Barrier-to-autointegration factor, BAF [47798] (1)
    contains one classic and one pseudo HhH motifs
    link to SUPERFAMILY database - Superfamily
    1. Barrier-to-autointegration factor, BAF [47799] (1)
      1. Barrier-to-autointegration factor, BAF [47800]
        1. Human (Homo sapiens) [TaxId: 9606] [47801] (8) picpic
  6. DNA polymerase beta, N-terminal domain-like [47802] (1)
    contains one classic and one pseudo HhH motifs
    link to SUPERFAMILY database - Superfamily
    1. DNA polymerase beta, N-terminal domain-like [47803] (4)
      1. DNA polymerase beta, N-terminal (8 kD)-domain [47804]
        topologically similar to the second domain
        1. Human (Homo sapiens) [TaxId: 9606] [47805] (107) picpic
          SQ P06746
        2. Rat (Rattus norvegicus) [TaxId: 10116] [47806] (10) picpic
      2. Terminal deoxynucleotidyl transferase [69042]
        1. Mouse (Mus musculus) [TaxId: 10090] [69043] (3) picpic
      3. DNA polymerase lambda [101251]
        1. Human (Homo sapiens) [TaxId: 9606] [101252] (25) picpic
  7. PsbU/PolX domain-like [81585] (2)
    contains one classic and one pseudo HhH motifs
    link to SUPERFAMILY database - Superfamily
    1. DNA polymerase beta-like, second domain [81584] (4)
      topological similarity to the N-terminal domain
      1. DNA polymerase beta [81579]
        1. Human (Homo sapiens) [TaxId: 9606] [81575] (107) picpic
        2. Rat (Rattus norvegicus) [TaxId: 10116] [81577] (18) picpic
      2. Terminal deoxynucleotidyl transferase [81583]
        1. Mouse (Mus musculus) [TaxId: 10090] [81582] (3) picpic
      3. DNA polymerase lambda [101253]
        1. Human (Homo sapiens) [TaxId: 9606] [101254] (24) picpic
    2. PsbU-like [158539] (1)
      Pfam 06514
      1. Photosystem II 12 kDa extrinsic protein PsbU [158540]
        1. Thermosynechococcus elongatus [TaxId: 146786] [158541] (1) picpic
          SQ Q9F1L5 37-134
  8. 5' to 3' exonuclease, C-terminal subdomain [47807] (1)
    link to SUPERFAMILY database - Superfamily
    1. 5' to 3' exonuclease, C-terminal subdomain [47808] (8)
      1. T4 RNase H [47809]
        1. Bacteriophage T4 [TaxId: 10665] [47810] (2) picpic
      2. 5' to 3' exonuclease domain of DNA polymerase Taq [47811]
        1. Thermus aquaticus [TaxId: 271] [47812] (4) picpic
      3. T5 5'-exonuclease [47813]
        1. Bacteriophage T5 [TaxId: 10726] [47814] (4) picpic
      4. Flap endonuclease-1 (Fen-1 nuclease) [47815]
        1. Archaeon Methanococcus jannaschii [TaxId: 2190] [47816] (2) picpic
        2. Archaeon Pyrococcus horikoshii [TaxId: 53953] [81798] (1) picpic
        3. Archaeon Pyrococcus furiosus [TaxId: 2261] [47818] (1) picpic
        4. Archaeon Archaeoglobus fulgidus [TaxId: 2234] [101255] (2) picpic
        5. Human (Homo sapiens) [TaxId: 9606] [140638] (3) picpic
          SQ P39748 218-357
  9. HRDC-like [47819] (4)
    link to SUPERFAMILY database - Superfamily
    1. HRDC domain from helicases [47820] (3)
      1. HRDC domain from RecQ helicase [47821]
        1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [47822] (1) picpic
        2. Escherichia coli [TaxId: 562] [140639] (3) picpic
          SQ P15043 530-606
      2. Werner syndrome ATP-dependent helicase, WRN [140640]
        1. Human (Homo sapiens) [TaxId: 9606] [140641] (3) picpic
          SQ Q14191 1140-1239! SQ Q14191 1142-1235
    2. RNA polymerase II subunit RBP4 (RpoF) [69044] (3)
      1. RNA polymerase II subunit RBP4 (RpoF) [69045]
        includes the N-terminal heterodimerisation alpha-hairpin
        1. Archaeon Methanococcus jannaschii [TaxId: 2190] [69046] (1) picpic
        2. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [116939] (1) picpic
          SQ P20433 46-221
        3. Human (Homo sapiens) [TaxId: 9606] [140642] (4) picpic
          SQ O15514 14-142
    3. RNase D C-terminal domains [140643] (1)
      tandem repeat of two domains of this fold, the first domain belongs to Pfam 00570
      1. Ribonuclease D [140644]
        1. Escherichia coli [TaxId: 562] [140645] (2) picpic
          SQ P09155 194-294! SQ P09155 295-375
    4. EXOSC10 HRDC domain-like [140646] (2)
      1. Exosome complex exonuclease RRP6 domain [140647]
        1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [140648] (4) picpic
          SQ Q12149 421-516
      2. Exosome component 10, EXOSC10 [140649]
        1. Human (Homo sapiens) [TaxId: 9606] [140650] (1) picpic
          SQ Q01780 483-595
  10. lambda integrase-like, N-terminal domain [47823] (1)
    link to SUPERFAMILY database - Superfamily
    1. lambda integrase-like, N-terminal domain [47824] (3)
      1. Cre recombinase [47825]
        1. Bacteriophage P1 [TaxId: 10678] [47826] (24) picpic
          SQ P06956 20-341
      2. Recombinase XerD [47827]
        1. Escherichia coli [TaxId: 562] [47828] (1) picpic
      3. Flp recombinase [47829]
        1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [47830] (3) picpic
  11. Enzyme I of the PEP:sugar phosphotransferase system HPr-binding (sub)domain [47831] (1)
    link to SUPERFAMILY database - Superfamily
    1. Enzyme I of the PEP:sugar phosphotransferase system HPr-binding (sub)domain [47832] (1)
      1. Enzyme I of the PEP:sugar phosphotransferase system HPr-binding (sub)domain [47833]
        inserted in the phosphohistidine domain
        1. Escherichia coli [TaxId: 562] [47834] (11) picpic
  12. Hypothetical protein YjbJ [69047] (1)
    link to SUPERFAMILY database - Superfamily
    1. Hypothetical protein YjbJ [69048] (1)
      1. Hypothetical protein YjbJ [69049]
        1. Escherichia coli [TaxId: 562] [69050] (1) picpic
  13. Putative methyltransferase TM0872, insert domain [81799] (1)
    link to SUPERFAMILY database - Superfamily
    1. Putative methyltransferase TM0872, insert domain [81800] (2)
      1. Putative methyltransferase TM0872, insert domain [81801]
        1. Thermotoga maritima [TaxId: 2336] [81802] (2) picpic
        2. Thermus thermophilus [TaxId: 274] [116940] (1) picpic
          SQ Q5SJD8
  14. eIF2alpha middle domain-like [116742] (1)
    link to SUPERFAMILY database - Superfamily
    1. eIF2alpha middle domain-like [116743] (3)
      1. Eukaryotic initiation factor 2alpha, eIF2alpha, domain 2 [116744]
        1. Human (Homo sapiens) [TaxId: 9606] [116745] (2) picpic
          SQ P05198
        2. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [116746] (1) picpic
        3. Sulfolobus solfataricus [TaxId: 2287] [140651] (1) picpic
          SQ Q97Z79 85-175
  15. YozE-like [140652] (1)
    link to SUPERFAMILY database - Superfamily
    1. YozE-like [140653] (2)
      Pfam 06855; DUF1250
      1. Hypothetical protein YozE [140654]
        1. Bacillus subtilis [TaxId: 1423] [140655] (1) picpic
          SQ O31864 1-74
      2. Uncharacterized protein MW1311 [158542]
        1. Staphylococcus aureus [TaxId: 1280] [158543] (2) picpic
          SQ Q7BEF3 4-73
  16. GspK insert domain-like [158544] (1)
    tandem repeat of two SAM-like domains iserted into pilin fold; domain 1 contains one classic HhH motif
    1. GspK insert domain-like [158545] (1)
      middle part of Pfam 03934
      1. Pseudopilin GspK [158546]
        1. Escherichia coli [TaxId: 562] [158547] (2) picpic
          SQ A7ZRI8 103-212! SQ A7ZRI8 213-283
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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