SCOPe Funding Alert: SCOPe support from the NIH ended in April 2016. John-Marc Chandonia is the primary maintainer and has continued to develop SCOPe using vacation time. Three proposals to the NIH for continued funding have been unsuccessful. If our current NIH proposal is not funded, SCOPe will shut down permanently in Summer 2017 as Dr. Chandonia will need to seek a new position.

Lineage for Family c.26.1.1: Class I aminoacyl-tRNA synthetases (RS), catalytic domain

  1. Root: SCOPe 2.06
  2. 2078559Class c: Alpha and beta proteins (a/b) [51349] (148 folds)
  3. 2105373Fold c.26: Adenine nucleotide alpha hydrolase-like [52373] (3 superfamilies)
    core: 3 layers, a/b/a ; parallel beta-sheet of 5 strands, order 32145
  4. 2105374Superfamily c.26.1: Nucleotidylyl transferase [52374] (6 families) (S)
  5. 2105375Family c.26.1.1: Class I aminoacyl-tRNA synthetases (RS), catalytic domain [52375] (13 protein domains)
    contains a conserved all-alpha subdomain at the C-terminal extension

Protein Domains:

  1. 2105376Arginyl-tRNA synthetase (ArgRS) [52392] (2 species)
    1. 2105377Species Baker's yeast (Saccharomyces cerevisiae) [TaxId:4932] [52393] (3 PDB entries)
    2. 2105381Species Thermus thermophilus [TaxId:274] [69454] (1 PDB entry)
  2. 2105383Class I lysyl-tRNA synthetase [75159] (1 species)
    similar domain organization to GluRS
  3. 2105387Cysteinyl-tRNA synthetase (CysRS) [75161] (1 species)
  4. 2105394Glutaminyl-tRNA synthetase (GlnRS) [52380] (2 species)
    1. 2105395Species Escherichia coli K-12 [TaxId:83333] [159495] (1 PDB entry)
    2. 2105397Species Escherichia coli [TaxId:562] [52381] (17 PDB entries)
  5. 2105415Glutamyl-Q tRNA-Asp synthetase YadB [102257] (1 species)
    truncated GluRS and GlnRS homologue lacking the anticodon-binding domain; glutamylates the modified base queuosine (Q) of tRNA-Asp
  6. 2105420Glutamyl-tRNA synthetase (GluRS) [52382] (1 species)
    Catalytic domain is very similar to that of GlnRS
  7. 2105440Isoleucyl-tRNA synthetase (IleRS) [52387] (2 species)
    1. 2105441Species Staphylococcus aureus [TaxId:1280] [52389] (3 PDB entries)
    2. 2105445Species Thermus thermophilus [TaxId:274] [52388] (3 PDB entries)
  8. 2105449Leucyl-tRNA synthetase (LeuRS) [82356] (1 species)
    • 2105450Species Thermus thermophilus [TaxId:274] [82357] (3 PDB entries)
      contains a non-conserved insertion (residues 581-633) that forms a separate subdomain; possible rudiment Zn finger
  9. 2105454Methionyl-tRNA synthetase (MetRS) [52384] (3 species)
    1. 2105455Species Escherichia coli [TaxId:562] [52386] (9 PDB entries)
    2. 2105465Species Pyrococcus abyssi [TaxId:29292] [110490] (1 PDB entry)
      Uniprot Q9V011 1-606 # C-domain 616-722 is solved separately: 1MKH
    3. Species Thermus thermophilus [TaxId:274] [52385] (1 PDB entry)
  10. 2105469Tryptophanyl-tRNA synthetase (TrpRS) [52378] (5 species)
    overall structure is similar to TyrRS
    1. 2105470Species Bacillus stearothermophilus [TaxId:1422] [52379] (12 PDB entries)
    2. 2105520Species Baker's yeast (Saccharomyces cerevisiae) [TaxId:4932] [255912] (4 PDB entries)
    3. 2105534Species Human (Homo sapiens) [TaxId:9606] [102256] (11 PDB entries)
      Uniprot P23381 94-471
    4. 2105553Species Thermotoga maritima [TaxId:2336] [187734] (1 PDB entry)
    5. 2105555Species Thermus thermophilus HB8 [TaxId:300852] [188378] (1 PDB entry)
  11. 2105558Tyrosyl-tRNA synthetase (TyrRS) [52376] (6 species)
    1. 2105559Species Bacillus stearothermophilus, nca 1503 [TaxId:1422] [52377] (7 PDB entries)
    2. 2105568Species Escherichia coli [TaxId:316407] [188087] (3 PDB entries)
    3. 2105572Species Human (Homo sapiens) [TaxId:9606] [82355] (4 PDB entries)
    4. 2105577Species Methanococcus jannaschii [TaxId:2190] [89611] (9 PDB entries)
    5. 2105590Species Staphylococcus aureus [TaxId:1280] [69453] (4 PDB entries)
    6. 2105595Species Thermus thermophilus [TaxId:274] [82354] (2 PDB entries)
  12. 2105599Valyl-tRNA synthetase (ValRS) [52390] (1 species)
  13. 2105607automated matches [190581] (9 species)
    not a true protein
    1. 2105608Species Archaeoglobus fulgidus [TaxId:2234] [187585] (1 PDB entry)
    2. 2105611Species Escherichia coli [TaxId:562] [188048] (3 PDB entries)
    3. 2105617Species Methanocaldococcus jannaschii [TaxId:2190] [188187] (8 PDB entries)
    4. 2105626Species Methanocaldococcus jannaschii [TaxId:243232] [193079] (8 PDB entries)
    5. 2105637Species Thermus thermophilus HB8 [TaxId:300852] [233866] (1 PDB entry)
    6. 2105639Species Thermus thermophilus [TaxId:274] [254946] (3 PDB entries)
    7. 2105643Species Vibrio cholerae [TaxId:243277] [196171] (1 PDB entry)
    8. 2105645Species Yersinia pestis [TaxId:214092] [189402] (1 PDB entry)
    9. 2288952Species Escherichia coli [TaxId:155864] [332253] (1 PDB entry)

More info for Family c.26.1.1: Class I aminoacyl-tRNA synthetases (RS), catalytic domain

Timeline for Family c.26.1.1: Class I aminoacyl-tRNA synthetases (RS), catalytic domain: