Superfamily: Sm-like ribonucleoproteins

uperfamily

Lineage:

1. Root: scop
2. Class: All beta proteins [48724]
3. Fold: Sm-like fold [50181]
   core: barrel, open; n*=4, S*=8; meander; SH3-like topology
4. Superfamily: Sm-like ribonucleoproteins [50182]
   uperfamily

Families:

1. Sm motif of small nuclear ribonucleoproteins, SNRNP [50183] (13)
   forms homo and heteroheptameric ring structures
   1. D1 core SNRNP protein [50184]
      1. Human (Homo sapiens) [TaxId: 9606] [50185] (1)
   2. D2 core SNRNP protein [50186]
      1. Human (Homo sapiens) [TaxId: 9606] [50187] (1)
   3. D3 core SNRNP protein [50188]
      1. Human (Homo sapiens) [TaxId: 9606] [50189] (1)
   4. B core SNRNP protein [50190]
      1. Human (Homo sapiens) [TaxId: 9606] [50191] (1)
   5. Small nuclear ribonucleoprotein F, Smf [82087]
      1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [82088] (2)
   6. Archaeal homoheptameric Sm protein [63758]
      1. Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262] [63759] (5)
         MTH649, smap1
      2. Archaeon Pyrobaculum aerophilum [TaxId: 13773] [63760] (2)
         smap1
      3. Archaeon Archaeoglobus fulgidus, AF-Sm1 [TaxId: 2234] [63761] (2)
      4. Archaeon Archaeoglobus fulgidus, AF-Sm2 [TaxId: 2234] [74938] (1)
      5. Archaeon Pyrococcus abyssi [TaxId: 29292] [82089] (2)
      6. Sulfolobus solfataricus [TaxId: 2287] [141290] (14)
         SQ Q97ZQ0 1-76
         SnRNP-2
   7. Sm-Like archaeal protein Smap3 [89317]
      contains additional C-terminal alpha+beta domain
      1. Archaeon Pyrobaculum aerophilum [TaxId: 13773] [89318] (1)
   8. U6 snRNA-associated sm-like protein LSM5 [141291]
      1. Cryptosporidium parvum [TaxId: 5807] [141292] (2)
         SQ Q5CXX3 24-115
2. Pleiotropic translational regulator Hfq [74939] (3)
   forms homohexameric ring structures
   1. Pleiotropic translational regulator Hfq [74940]
      1. Staphylococcus aureus [TaxId: 1280] [74941] (2)
      2. Escherichia coli [TaxId: 562] [89319] (1)
      3. Pseudomonas aeruginosa [TaxId: 287] [141293] (12)
         SQ Q9HUM0 6-71
3. Mechanosensitive channel protein MscS (YggB), middle domain [82090] (1)
   1. Mechanosensitive channel protein MscS (YggB), middle domain [82091]
      forms homoheptameric ring structure very similar to those of the archaeal and eukaryotic Sm proteins
      1. Escherichia coli [TaxId: 562] [82092] (14)
4. PF1955-like [141294] (1)
   homohexadecameric assembly: two stacked octameric rings
   1. Hypothetical protein PF1955 [141295]
      1. Pyrococcus furiosus [TaxId: 2261] [141296] (4)
         SQ Q8TZN2 5-70
5. LSM14 N-terminal domain-like [141297] (1)
   1. LSM14 homolog A (Lsm14a) [141298]
      1. Zebrafish (Danio rerio) [TaxId: 7955] [141299] (2)
         SQ Q6P111 6-85
6. YgdI/YgdR-like [159052] (6)
   Pfam 06004; DUF903, putative lipoprotein; both homohexameric and homoheptameric ring assemblies are observed in the crystals
   1. Uncharacterized protein SO0963 [159053]
      1. Shewanella oneidensis [TaxId: 70863] [159054] (2)
         SQ Q8EI81 25-76
   2. Uncharacterized protein YgdI [159055]
      1. Salmonella typhimurium [TaxId: 90371] [159056] (6)
         SQ Q7CPV8 23-75
   3. Uncharacterized protein ECA1013 [159057]
      1. Erwinia carotovora [TaxId: 554] [159058] (7)
         SQ Q6D8G1 21-73
   4. Putative outer membrane lipoprotein STM1585 [159059]
      1. Salmonella typhimurium [TaxId: 90371] [159060] (3)
         SQ Q7CQI7 22-73
   5. Uncharacterized protein PSPPH2109 [159061]
      1. Pseudomonas syringae [TaxId: 317] [159062] (1)
         SQ Q48JU9 23-74
   6. Hypothetical lipoprotein YgdR [159063]
      1. Escherichia coli [TaxId: 562] [159064] (1)
         SQ P65294 23-72

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