Structural Classification of Proteins
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Superfamily: Ubiquitin-like

link to SUPERFAMILY database - Superfamily

Lineage:

  1. Root: scop
  2. Class: Alpha and beta proteins (a+b) [53931]
    Mainly antiparallel beta sheets (segregated alpha and beta regions)
  3. Fold: beta-Grasp (ubiquitin-like) [54235]
    core: beta(2)-alpha-beta(2); mixed beta-sheet 2143
  4. Superfamily: Ubiquitin-like [54236]
    link to SUPERFAMILY database - Superfamily

Families:

  1. Ubiquitin-related [54237] (47)
    Pfam 00240
    1. Ubiquitin [54238]
      1. Human (Homo sapiens) [TaxId: 9606] [54239] (102) picpic
        SQ P62988
        identical sequence in many other species
      2. Baker's yeast (Saccharomyces cerevisiae), smt3 [TaxId: 4932] [89830] (7) picpic
      3. Synthetic, based on Saccharomyces cerevisiae sequence [54240] (1) picpic
    2. SUMO-1 (smt3 homologue) [54241]
      1. Human (Homo sapiens) [TaxId: 9606] [54242] (17) picpic
        SQ Q93068
      2. Baker's yeast (Saccharomyces cerevisiae), smt3 [TaxId: 4932] [54243] (4) picpic
    3. Nedd8 [54244]
      1. Human (Homo sapiens) [TaxId: 9606] [54245] (7) picpic
        SQ Q15843
    4. Elongin B [54246]
      1. Human (Homo sapiens) [TaxId: 9606] [54247] (7) picpic
      2. Mouse (Mus musculus) [TaxId: 10090] [142930] (1) picpic
        SQ P62869 1-98
    5. Rub1 [54248]
      1. Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702] [54249] (1) picpic
    6. Ubiquitin-like modifier protein hub1 [82579]
      1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [82580] (1) picpic
    7. Ubiquitin-like N-terminal domain of PLIC-2 [75358]
      1. Human (Homo sapiens) [TaxId: 9606] [75359] (1) picpic
    8. Ubiquitin-like domain of parkin [89831]
      1. Human (Homo sapiens) [TaxId: 9606] [89832] (1) picpic
      2. Mouse (Mus musculus) [TaxId: 10090] [89833] (2) picpic
    9. Ubiquitin-like domain of Rad23 homolog A (Hhr23a) [102775]
      1. Human (Homo sapiens) [TaxId: 9606] [102776] (4) picpic
    10. Ubiquitin-like domain of Rad23 homolog B (Hhr23B) [102777]
      1. Human (Homo sapiens) [TaxId: 9606] [102778] (2) picpic
        SQ P54727 1-82
    11. Ubiquitin-like protein 5, ubl5 [102779]
      1. Human (Homo sapiens) [TaxId: 9606] [102780] (1) picpic
      2. Mouse (Mus musculus) [TaxId: 10090] [102781] (1) picpic
    12. Hypothetical protein At3g01050 [102782]
      1. Thale cress (Arabidopsis thaliana) [TaxId: 3702] [102783] (1) picpic
    13. Ubiquitin-like protein 3300001g02rik [102784]
      1. Mouse (Mus musculus) [TaxId: 10090] [102785] (1) picpic
    14. Ubiquitin-like domain of tubulin folding cofactor B [102786]
      1. Nematode (Caenorhabditis elegans) [TaxId: 6239] [102787] (1) picpic
      2. Mouse (Mus musculus) [TaxId: 10090] [117798] (1) picpic
        SQ Q9D1E6 11-92
    15. 1700011n24rik protein [110796]
      1. Mouse (Mus musculus) [TaxId: 10090] [110797] (1) picpic
        SQ Q9DAF3 1-89
    16. 8430435i17rik protein [110798]
      1. Mouse (Mus musculus) [TaxId: 10090] [110799] (1) picpic
        SQ Q8BGR9 3-79
    17. hypothetical D7wsu128e protein [110800]
      1. Mouse (Mus musculus) [TaxId: 10090] [110801] (1) picpic
        SQ Q78JW9 76-157
    18. Splicing factor 3 subunit 1, C-terminal domain [117799]
      1. Mouse (Mus musculus) [TaxId: 10090] [117800] (1) picpic
        SQ Q8K4Z5 685-786
      2. Thale cress (Arabidopsis thaliana) [TaxId: 3702] [117801] (1) picpic
        SQ Q8RXF1 683-780; T5E21.13/At1g14650
      3. Human (Homo sapiens) [TaxId: 9606] [142931] (1) picpic
        SQ Q15459 704-789
    19. Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein, HERPUD1 [117802]
      1. Human (Homo sapiens) [TaxId: 9606] [117803] (1) picpic
        SQ Q15011 10-90
    20. Ubiquitin carboxyl-terminal hydrolase 14 [117804]
      1. Mouse (Mus musculus) [TaxId: 10090] [117805] (1) picpic
        SQ Q9JMA1 3-85
    21. Ubiquitin-like protein 3, Ubl3 [117806]
      1. Mouse (Mus musculus) [TaxId: 10090] [117807] (1) picpic
        SQ Q9Z2M6 1-103
    22. 2'-5'-oligoadenylate synthetase-like protein, OASL [117808]
      1. Human (Homo sapiens) [TaxId: 9606] [117809] (1) picpic
        SQ Q15646 434-507
    23. Ubiquitin-like protein bab25500 (2010008E23Rik) [117810]
      1. Mouse (Mus musculus) [TaxId: 10090] [117811] (1) picpic
        SQ Q9D8C5 163-244
    24. Tubulin-folding protein TbcE [117812]
      1. Mouse (Mus musculus) [TaxId: 10090] [117813] (1) picpic
        SQ Q8CIV8 441-524
    25. NEDD8 ultimate buster-1, NUB1 [117814]
      1. Human (Homo sapiens) [TaxId: 9606] [117815] (1) picpic
        SQ Q9Y5A7 75-161
    26. SUMO-2 [117816]
      1. Human (Homo sapiens) [TaxId: 9606] [117817] (13) picpic
        SQ P61956
    27. Bag-family molecular chaperone regulator-1 [142932]
      1. Human (Homo sapiens) [TaxId: 9606] [142933] (1) picpic
        SQ Q99933 72-152
        the BAG domain structure is also known (scop_sp 63494)
    28. NPL4-like protein 1 [142934]
      1. Thale cress (Arabidopsis thaliana) [TaxId: 3702] [142935] (1) picpic
        SQ Q9LYC2 2-95
    29. Interferon-induced 15 kDa protein [142936]
      1. Human (Homo sapiens) [TaxId: 9606] [142937] (2) picpic
        SQ P05161 2-77! SQ P05161 78-153
    30. Ubiquitin-like protein smt3a, SUMO-3 [142938]
      1. Human (Homo sapiens) [TaxId: 9606] [142939] (1) picpic
        SQ P55854 14-92
    31. DSK2 [142940]
      1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [142941] (5) picpic
        SQ P48510 2-74
    32. Ubiquitin-like protein 7 [142942]
      1. Mouse (Mus musculus) [TaxId: 10090] [142943] (1) picpic
        SQ Q91W67 1-94
    33. Ubiquitin-like PHD and RING finger domain-containing protein 2 [142944]
      1. Human (Homo sapiens) [TaxId: 9606] [142945] (1) picpic
        SQ Q96PU4 1-76
    34. Ubiquilin-3 [142946]
      1. Human (Homo sapiens) [TaxId: 9606] [142947] (2) picpic
        SQ Q9H347 11-104! SQ Q9H347 15-98
    35. Ubiquitin-like PHD and RING finger domain-containing protein 1 [142948]
      1. Human (Homo sapiens) [TaxId: 9606] [142949] (2) picpic
        SQ Q96T88 1-76
    36. 4931431F19Rik [142950]
      1. Mouse (Mus musculus) [TaxId: 10090] [142951] (1) picpic
        SQ Q9D4I8 14-96
        structure of the C-terminal UBA domain is also known (PDB 1vej)
    37. Large proline-rich protein BAT3 [142952]
      1. Human (Homo sapiens) [TaxId: 9606] [142953] (1) picpic
        SQ P46379 17-89
    38. Dendritic cell-derived ubiquitin-like protein [142954]
      1. Human (Homo sapiens) [TaxId: 9606] [142955] (1) picpic
        SQ Q8WUN7 149-228
  2. UBX domain [54250] (5)
    Pfam 00789
    1. Fas-associated factor 1, Faf1 [54251]
      1. Human (Homo sapiens) [TaxId: 9606] [54252] (1) picpic
    2. p47 [64221]
      1. Rat (Rattus norvegicus) [TaxId: 10116] [64222] (3) picpic
    3. Hypothetical protein KIAA0794 [117818]
      1. Human (Homo sapiens) [TaxId: 9606] [117819] (1) picpic
        SQ O94888 376-487
    4. UBX domain-containing protein 6 (Reproduction 8) [142956]
      1. Mouse (Mus musculus) [TaxId: 10090] [142957] (1) picpic
        SQ Q9QZ49 182-277
    5. Tether containing UBX domain for GLUT4 (Tug) [142958]
      1. Mouse (Mus musculus) [TaxId: 10090] [142959] (1) picpic
        SQ Q8VBT9 10-85
  3. GABARAP-like [54253] (5)
    intracellular membrane trafficking and fusion proteins
    1. Golgi-associated ATPase enhancer of 16 kD, Gate-16 [54254]
      1. Cow (Bos taurus) [TaxId: 9913] [54255] (1) picpic
    2. GABA(A) receptor associated protein GABARAP [69658]
      1. Human (Homo sapiens) [TaxId: 9606] [69659] (6) picpic
      2. Rat (Rattus norvegicus) [TaxId: 10116] [75360] (1) picpic
    3. Microtubule-associated proteins 1A/1B light chain 3B [110802]
      1. Rat (Rattus norvegicus) [TaxId: 10116] [110803] (4) picpic
        SQ Q62625 4-116
      2. Human (Homo sapiens) [TaxId: 9606] [117820] (3) picpic
        SQ Q9GZQ8
  4. First domain of FERM [54256] (7)
    1. Moesin [54257]
      1. Human (Homo sapiens) [TaxId: 9606] [54258] (3) picpic
        SQ P26038 4-297
    2. Radixin [54259]
      1. Mouse (Mus musculus) [TaxId: 10090] [54260] (20) picpic
    3. Ezrin [82581]
      1. Human (Homo sapiens) [TaxId: 9606] [82582] (1) picpic
    4. Erythroid membrane protein 4.1R [54261]
      1. Human (Homo sapiens) [TaxId: 9606] [54262] (1) picpic
    5. Merlin [69660]
      the neurofibromatosis 2 tumor suppressor protein
      1. Human (Homo sapiens) [TaxId: 9606] [69661] (1) picpic
      2. Mouse (Mus musculus) [TaxId: 10090] [75361] (1) picpic
    6. Focal adhesion kinase 1 [142960]
      1. Chicken (Gallus gallus) [TaxId: 9031] [142961] (5) picpic
        SQ Q00944 31-130
  5. Ras-binding domain, RBD [54263] (16)
    contains Pfam 00788 and Pfam 02196
    1. c-Raf1 RBD [54264]
      1. Human (Homo sapiens) [TaxId: 9606] [54265] (3) picpic
      2. Rat (Rattus norvegicus) [TaxId: 10116] [54266] (1) picpic
    2. Ral guanosine-nucleotide exchange factor, RalGDS [54267]
      1. Rat (Rattus norvegicus) [TaxId: 10116] [54268] (2) picpic
      2. Human (Homo sapiens) [TaxId: 9606] [54269] (3) picpic
    3. RalGDS-like factor, Rlf [54270]
      1. Mouse (Mus musculus) [TaxId: 10090] [54271] (1) picpic
    4. Rgl [54272]
      1. Mouse (Mus musculus) [TaxId: 10090] [54273] (1) picpic
    5. Phoshoinositide 3-kinase (PI3K) [54274]
      includes parts of the flanking linkers
      1. Pig (Sus scrofa) [TaxId: 9823] [54275] (5) picpic
      2. Human (Homo sapiens) [TaxId: 9606] [54276] (3) picpic
    6. Protein kinase byr2 [69662]
      1. Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896] [69663] (2) picpic
    7. Regulator of G-protein signaling 14, RGS14 [117821]
      1. Mouse (Mus musculus) [TaxId: 10090] [117822] (1) picpic
        SQ P97492 366-456
    8. Growth factor receptor-bound protein 7, GRB-7 [117823]
      1. Human (Homo sapiens) [TaxId: 9606] [117824] (1) picpic
        SQ Q14451 100-186
    9. Rap guanine nucleotide exchange factor 5, RapGEF5 [117825]
      1. Human (Homo sapiens) [TaxId: 9606] [117826] (1) picpic
        SQ Q92565 241-331
    10. Ras association domain-containing protein 8 [142962]
      1. Human (Homo sapiens) [TaxId: 9606] [142963] (1) picpic
        SQ Q8NHQ8 1-83
    11. Afadin [142964]
      1. Mouse (Mus musculus) [TaxId: 10090] [142965] (1) picpic
        SQ Q9QZQ1 246-348
        The FHA domain structure is also known (PDB 1wln)
    12. Phospholipase C-epsilon-1 [142966]
      contains several Ras-binding domains; some are 'hidden' in the sequence
      1. Human (Homo sapiens) [TaxId: 9606] [142967] (4) picpic
        SQ Q9P212 2006-2114! SQ Q9P212 2131-2246! SQ Q9P212 2134-2239
    13. A-Raf proto-oncogene serine/threonine-protein kinase [142968]
      1. Human (Homo sapiens) [TaxId: 9606] [142969] (1) picpic
        SQ P10398 19-91
  6. BM-002-like [75362] (3)
    Pfam 03671; UPF0185; this family comprises small uncharacterized proteins including human protein BM-002
    1. Hypothetical protein zk652.3 [75363]
      1. Caenorhabditis elegans [TaxId: 6239] [75364] (1) picpic
    2. Hypothetical protein 1810045k17 [102788]
      1. Mouse (Mus musculus) [TaxId: 10090] [102789] (1) picpic
    3. Ubiquitin-fold modifier 1 [142970]
      1. Human (Homo sapiens) [TaxId: 9606] [142971] (1) picpic
        SQ P61960 1-83
  7. APG12-like [142972] (1)
    Pfam 04110
    1. Autophagy-related protein 12b (APG12b) [142973]
      1. Thale cress (Arabidopsis thaliana) [TaxId: 3702] [142974] (2) picpic
        SQ Q9LVK3 10-93
  8. DIX domain [159926] (1)
    Pfam 00778
    1. Axin 1 [159927]
      1. Rat (Rattus norvegicus) [TaxId: 10116] [159928] (9) picpic
        SQ O70239 745-827
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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