Structural Classification of Proteins
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Family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain

contains a conserved all-alpha subdomain at the C-terminal extension

Lineage:

  1. Root: scop
  2. Class: Alpha and beta proteins (a/b) [51349]
    Mainly parallel beta sheets (beta-alpha-beta units)
  3. Fold: Adenine nucleotide alpha hydrolase-like [52373]
    core: 3 layers, a/b/a ; parallel beta-sheet of 5 strands, order 32145
  4. Superfamily: Nucleotidylyl transferase [52374]
    link to SUPERFAMILY database - Superfamily
  5. Family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain [52375]
    contains a conserved all-alpha subdomain at the C-terminal extension

Protein Domains:

  1. Tyrosyl-tRNA synthetase (TyrRS) [52376]
    1. Bacillus stearothermophilus, nca 1503 [TaxId: 1422] [52377] (7)
      1. 2ts1 picpic
        1. chain a [31564] picpiclink
      2. 4ts1 picpic
        mutant
        1. chain a [31565] picpiclink
        2. chain b [31566] picpiclink
      3. 1tyc picpic
        mutant
        1. chain a [31568] picpiclink
      4. 1tyd picpic
        mutant
        1. chain e [31567] picpiclink
      5. 1tyb picpic
        mutant
        1. chain e [31569] picpiclink
      6. 1tya picpic
        mutant
        1. chain e [31570] picpiclink
      7. 3ts1 picpic
        complexed with tya
        1. chain a [31571] picpiclink
    2. Staphylococcus aureus [TaxId: 1280] [69453] (4)
      1. 1jil picpic
        complexed with 485
        1. chain a [66745] picpiclink
      2. 1jik picpic
        complexed with 545
        1. chain a [66744] picpiclink
      3. 1jij picpic
        complexed with 629
        1. chain a [66743] picpiclink
      4. 1jii picpic
        complexed with 383
        1. chain a [66742] picpiclink
    3. Thermus thermophilus [TaxId: 274] [82354] (2)
      1. 1h3f picpicxref
        complexed with so4, tyb
        1. region a:5-347 [76631] picpiclink
        2. region b:5-343 [76633] picpiclink
      2. 1h3e picpicxref
        complexed with atp, mad, psu, rt, tyb
        1. region a:6-351 [76629] picpiclink
    4. Archaeon Methanococcus jannaschii [TaxId: 2190] [89611] (3)
      1. 1j1u picpic
        complexed with mg, tyr
        1. chain a [83980] picpiclink
      2. 1u7d picpic
        automatically matched to d1j1ua_
        1. region a:1-306 [119615] picpiclink
      3. 1u7d picpic
        automatically matched to d1j1ua_
        1. region b:2-306 [119616] picpiclink
    5. Human (Homo sapiens) [TaxId: 9606] [82355] (2)
      1. 1n3l picpic
        mini-TyrRS; anticodon recognition part is more divergent; secreted cytokine with IL-8-like activity
        complexed with gol, so4
        1. chain a [79966] picpiclink
      2. 1q11 picpic
        mini-TyrRS
        complexed with gol, k, po4
        1. chain a [95528] picpiclink
  2. Tryptophanyl-tRNA synthetase (TrpRS) [52378]
    overall structure is similar to TyrRS
    1. Bacillus stearothermophilus [TaxId: 1422] [52379] (9)
      1. 1i6l picpic
        complexed with gol, nh4, so4, tym
        1. chain a [66041] picpiclink
      2. 1i6m picpic
        complexed with gol, nh4, so4, tym
        1. chain a [66042] picpiclink
      3. 1i6k picpic
        complexed with gol, nh4, so4, tym
        1. chain a [66040] picpiclink
      4. 1mau picpic
        complexed with atp, cit, gol, ltn, mg, na
        1. chain a [78892] picpiclink
      5. 1m83 picpic
        complexed with atp, gol, mg
        1. chain a [78767] picpiclink
      6. 2ov4 picpic
        automatically matched to d1m83a_
        complexed with anl, aqp, cs, gol
        1. region a:1-328 [139379] picpiclink
      7. 1mb2 picpic
        complexed with ltr
        1. chain a [78901] picpiclink
        2. chain b [78902] picpiclink
        3. chain c [78903] picpiclink
        4. chain d [78904] picpiclink
        5. chain e [78905] picpiclink
        6. chain f [78906] picpiclink
      8. 1d2r picpic
        1. chain a [31572] picpiclink
        2. chain b [31573] picpiclink
        3. chain c [31574] picpiclink
        4. chain d [31575] picpiclink
        5. chain e [31576] picpiclink
        6. chain f [31577] picpiclink
      9. 1maw picpic
        complexed with atp
        1. chain a [78894] picpiclink
        2. chain b [78895] picpiclink
        3. chain c [78896] picpiclink
        4. chain d [78897] picpiclink
        5. chain e [78898] picpiclink
        6. chain f [78899] picpiclink
    2. Human (Homo sapiens) [TaxId: 9606] [102256] (16)
      SQ P23381 94-471
      1. 1r6t picpicxref
        complexed with gol, tym; mutant
        1. region a:82-467 [97161] picpiclink
      2. 1r6t picpicxref
        complexed with gol, tym; mutant
        1. chain b [97162] picpiclink
      3. 1r6u picpic
        complexed with gol, tym; mutant
        1. chain a [97163] picpiclink
        2. chain b [97164] picpiclink
      4. 2qui picpic
        automatically matched to d1ulhb_
        complexed with atp, ltn, mg
        1. region a:97-469 [151371] picpiclink
      5. 2qui picpic
        automatically matched to d1ulhb_
        complexed with atp, ltn, mg
        1. region b:97-469 [151372] picpiclink
      6. 2quh picpic
        automatically matched to d1ulhb_
        complexed with trp
        1. region a:97-469 [151369] picpiclink
      7. 2quh picpic
        automatically matched to d1ulhb_
        complexed with trp
        1. region b:97-469 [151370] picpiclink
      8. 2quj picpic
        automatically matched to d1ulhb_
        complexed with cl, gol, trp, tym
        1. region a:97-469 [151373] picpiclink
      9. 2quj picpic
        automatically matched to d1ulhb_
        complexed with cl, gol, trp, tym
        1. region b:97-469 [151374] picpiclink
      10. 1ulh picpic
        1. chain a [99557] picpiclink
        2. chain b [99558] picpiclink
      11. 1o5t picpic
        1. chain a [103891] picpiclink
      12. 2azx picpic
        automatically matched to d1r6ua_
        complexed with gol, mg, so4, trp; mutant
        1. region a:82-468 [127616] picpiclink
      13. 2azx picpic
        automatically matched to d1r6ua_
        complexed with gol, mg, so4, trp; mutant
        1. region b:82-468 [127617] picpiclink
      14. 2dr2 picpic
        automatically matched to d1ulhb_
        complexed with so4, trp
        1. region a:97-469 [131653] picpiclink
      15. 2ake picpic
        automatically matched to d1ulhb_
        complexed with so4, trp
        1. region a:97-469 [126915] picpiclink
      16. 2quk picpic
        automatically matched to d1ulhb_
        1. region a:97-469 [151375] picpiclink
  3. Glutaminyl-tRNA synthetase (GlnRS) [52380]
    1. Escherichia coli [TaxId: 562] [52381] (14)
      1. 1gtr picpicxref
        protein/tRNA complex; complexed with atp
        1. region a:8-338 [31578] picpiclink
      2. 1qtq picpicxref
        protein/tRNA complex; complexed with qsi, so4
        1. region a:8-338 [31579] picpiclink
      3. 1zjw picpicxref
        automatically matched to d1euqa2
        complexed with amp, gln, so4
        1. region a:8-338 [125162] picpiclink
      4. 1qrs picpicxref
        protein/tRNA complex; complexed with atp; mutant
        1. region a:8-338 [31580] picpiclink
      5. 1o0c picpicxref
        complexed with amp, glu, so4; mutant
        1. region a:8-338 [86530] picpiclink
      6. 1o0b picpicxref
        complexed with amp, gln, so4; mutant
        1. region a:8-338 [86528] picpiclink
      7. 1qrt picpicxref
        protein/tRNA complex; complexed with atp; mutant
        1. region a:8-338 [31582] picpiclink
      8. 1exd picpicxref
        protein/tRNA complex; complexed with a, so4; mutant
        1. region a:8-338 [31583] picpiclink
      9. 1euy picpicxref
        protein/tRNA complex; complexed with qsi; mutant
        1. region a:8-338 [31584] picpiclink
      10. 1gts picpicxref
        protein/tRNA complex; complexed with amp
        1. region a:8-338 [31581] picpiclink
      11. 1nyl picpicxref
        1. region a:8-338 [80742] picpiclink
      12. 1qru picpicxref
        protein/tRNA complex; complexed with atp; mutant
        1. region a:8-338 [31585] picpiclink
      13. 1euq picpicxref
        protein/tRNA complex; complexed with qsi; mutant
        1. region a:8-338 [31586] picpiclink
      14. 1gsg picpicxref
        protein/tRNA complex
        1. region p:8-338 [31587] picpiclink
    2. Escherichia coli K12 (Escherichia coli K-12) [TaxId: 83333] [159495] (2)
      1. 2rd2 picpicxref
        automatically matched to d1euqa2
        complexed with qsi, so4; mutant
        1. region a:8-338 [151919] picpiclink
      2. 2re8 picpicxref
        automatically matched to d1euqa2
        complexed with gsu, so4; mutant
        1. region a:8-338 [151972] picpiclink
  4. Glutamyl-tRNA synthetase (GluRS) [52382]
    Catalytic domain is very similar to that of GlnRS
    1. Thermus thermophilus [TaxId: 274] [52383] (15)
      1. 1j09 picpicxref
        complexed with atp, glu, mo3
        1. region a:1-305 [77026] picpiclink
      2. 1n75 picpicxref
        complexed with atp, mo3
        1. region a:1-305 [80225] picpiclink
      3. 2cuz picpicxref
        automatically matched to d1g59a2
        complexed with glu
        1. region a:1-305 [130823] picpiclink
      4. 1n78 picpicxref
        complexed with gom, mo6
        1. region a:1-305 [80233] picpiclink
        2. region b:1-305 [80235] picpiclink
      5. 2dxi picpicxrefxref
        automatically matched to d1g59a2
        complexed with atp, gau, mg
        1. region a:1-305 [131875] picpiclink
      6. 2dxi picpicxrefxref
        automatically matched to d1g59a2
        complexed with atp, gau, mg
        1. region b:1-305 [131877] picpiclink
      7. 2cv0 picpicxrefxref
        automatically matched to d1g59a2
        complexed with glu, mg
        1. region a:1-305 [130825] picpiclink
      8. 2cv0 picpicxrefxref
        automatically matched to d1g59a2
        complexed with glu, mg
        1. region b:1-305 [130827] picpiclink
      9. 2cv1 picpicxrefxref
        automatically matched to d1g59a2
        complexed with atp, gau, mg
        1. region a:1-305 [130829] picpiclink
      10. 2cv1 picpicxrefxref
        automatically matched to d1g59a2
        complexed with atp, gau, mg
        1. region b:1-305 [130831] picpiclink
      11. 1n77 picpicxref
        complexed with atp, mg
        1. region a:1-305 [80229] picpiclink
        2. region b:1-305 [80231] picpiclink
      12. 2cv2 picpicxrefxref
        automatically matched to d1g59a2
        complexed with cl, gsu, mg
        1. region a:1-305 [130833] picpiclink
      13. 2cv2 picpicxrefxref
        automatically matched to d1g59a2
        complexed with cl, gsu, mg
        1. region b:1-305 [130835] picpiclink
      14. 1gln picpicxref
        1. region a:1-305 [31588] picpiclink
      15. 1g59 picpicxref
        1. region a:1-305 [60258] picpiclink
        2. region c:1-305 [60260] picpiclink
  5. Glutamyl-Q tRNA-Asp synthetase YadB [102257]
    truncated GluRS and GlnRS homologue lacking the anticodon-binding domain; glutamylates the modified base queuosine (Q) of tRNA-Asp
    1. Escherichia coli [TaxId: 562] [102258] (2)
      1. 1nzj picpic
        structural genomics
        complexed with zn
        1. chain a [92377] picpiclink
      2. 2zlz picpic
        automatically matched to d1nzja_
        complexed with glu, zn
        1. region a:4-289 [154682] picpiclink
  6. Class I lysyl-tRNA synthetase [75159]
    similar domain organization to GluRS
    1. Archaeon Pyrococcus horikoshii [TaxId: 53953] [75160] (1)
      1. 1irx picpicxref
        complexed with zn
        1. region a:3-319 [71379] picpiclink
        2. region b:3-319 [71381] picpiclink
  7. Methionyl-tRNA synthetase (MetRS) [52384]
    1. Thermus thermophilus [TaxId: 274] [52385] (4)
      1. 2d5b picpicxref
        automatically matched to d1a8h_2
        complexed with zn; mutant
        1. region a:1-348 [131269] picpiclink
      2. 1woy picpicxref
        automatically matched to d1a8h_2
        complexed with zn; mutant
        1. region a:1-348 [121131] picpiclink
      3. 2d54 picpicxref
        automatically matched to d1a8h_2
        complexed with zn; mutant
        1. region a:1-348 [131265] picpiclink
      4. 1a8h picpicxref
        complexed with zn
        1. region a:1-348 [31589] picpiclink
    2. Escherichia coli [TaxId: 562] [52386] (9)
      1. 1pfv picpicxrefxref
        complexed with 2fm, zn
        1. region a:4-140,a:176-388 [94661] picpiclink
      2. 1pfw picpicxrefxref
        complexed with mf3, zn
        1. region a:4-140,a:176-388 [94664] picpiclink
      3. 1p7p picpicxrefxref
        complexed with mph, zn
        1. region a:4-140,a:176-388 [94310] picpiclink
      4. 1pg2 picpicxref
        complexed with adn, met
        1. region a:4-125,a:185-388 [94672] picpiclink
      5. 1f4l picpicxrefxref
        complexed with met, zn
        1. region a:4-140,a:176-388 [59649] picpiclink
      6. 1pfu picpicxrefxref
        complexed with mpj, zn
        1. region a:4-140,a:176-388 [94658] picpiclink
      7. 1pfy picpicxrefxref
        complexed with msp, zn
        1. region a:4-140,a:176-388 [94667] picpiclink
      8. 1pg0 picpicxref
        complexed with mod
        1. region a:4-129,a:185-388 [94670] picpiclink
      9. 1qqt picpicxrefxref
        1. region a:3-140,a:176-388 [31590] picpiclink
    3. Pyrococcus abyssi [TaxId: 29292] [110490] (1)
      SQ Q9V011 1-606 # C-domain 616-722 is solved separately: 1MKH
      1. 1rqg picpicxrefxref
        complexed with zn
        1. region a:1-138,a:174-396 [105064] picpiclink
  8. Cysteinyl-tRNA synthetase (CysRS) [75161]
    1. Escherichia coli [TaxId: 562] [75162] (3)
      SQ P21888
      1. 1u0b picpicxref
        complexed with zn
        1. region b:1-315 [112905] picpiclink
      2. 1li5 picpicxref
        complexed with zn
        1. region a:1-315 [73913] picpiclink
        2. region b:1-315 [73915] picpiclink
      3. 1li7 picpicxref
        complexed with cys, zn
        1. region a:1-315 [73918] picpiclink
        2. region b:1-315 [73920] picpiclink
  9. Isoleucyl-tRNA synthetase (IleRS) [52387]
    1. Thermus thermophilus [TaxId: 274] [52388] (3)
      1. 1ile picpicxrefxref
        complexed with zn
        1. region a:1-197,a:387-641 [31591] picpiclink
      2. 1jzs picpicxrefxref
        complexed with mrc, zn
        1. region a:1-197,a:387-641 [67882] picpiclink
      3. 1jzq picpicxrefxref
        complexed with ila, zn
        1. region a:1-197,a:387-641 [67871] picpiclink
    2. Staphylococcus aureus [TaxId: 1280] [52389] (3)
      1. 1qu2 picpicxrefxref
        protein/DNA complex; complexed with k, mo2, mo4, mo5, mo6, mrc, zn
        1. region a:1-200,a:395-644 [31592] picpiclink
      2. 1ffy picpicxrefxref
        protein/RNA complex; complexed with k, mo2, mo4, mo5, mo6, mrc, zn
        1. region a:1-200,a:395-644 [31593] picpiclink
      3. 1qu3 picpicxrefxref
        complexed with mrc, zn
        1. region a:2-200,a:395-644 [31594] picpiclink
  10. Valyl-tRNA synthetase (ValRS) [52390]
    1. Thermus thermophilus [TaxId: 274] [52391] (3)
      1. 1ivs picpicxrefxrefxref
        complexed with vaa
        1. region a:1-189,a:343-578 [76858] picpiclink
        2. region b:1-189,b:343-578 [76862] picpiclink
      2. 1gax picpicxrefxrefxref
        protein/RNA complex; complexed with vaa, zn
        1. region a:1-189,a:343-578 [31595] picpiclink
        2. region b:1-189,b:343-578 [31596] picpiclink
      3. 1iyw picpicxrefxrefxref
        preliminary structure of ligand-free enzyme; CA-atoms only
        1. region a:1-189,a:343-578 [83810] picpiclink
        2. region b:1-189,b:343-578 [83814] picpiclink
  11. Leucyl-tRNA synthetase (LeuRS) [82356]
    1. Thermus thermophilus [TaxId: 274] [82357] (3)
      contains a non-conserved insertion (residues 581-633) that forms a separate subdomain; possible rudiment Zn finger
      1. 1h3n picpicxrefxref
        complexed with leu, lms, so4, zn
        1. region a:1-225,a:418-686 [76643] picpiclink
      2. 1obc picpicxrefxref
        complexed with 2ad, leu, lms, nva, zn
        1. region a:1-225,a:418-686 [86766] picpiclink
      3. 1obh picpicxrefxref
        complexed with hg, lms, nva, so4
        1. region a:1-225,a:418-686 [86775] picpiclink
  12. Arginyl-tRNA synthetase (ArgRS) [52392]
    1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [52393] (3)
      1. 1f7u picpicxrefxref
        complexed with 1ma, 1mg, 2mg, 5mc, 5mu, arg, dhu, m2g, psu, so4
        1. region a:136-483 [59674] picpiclink
      2. 1bs2 picpicxrefxref
        1. region a:136-483 [31597] picpiclink
      3. 1f7v picpicxrefxref
        complexed with 1ma, 1mg, 2mg, 5mc, 5mu, dhu, m2g, psu
        1. region a:136-483 [59677] picpiclink
    2. Thermus thermophilus [TaxId: 274] [69454] (1)
      1. 1iq0 picpicxrefxref
        1. region a:97-466 [66258] picpiclink
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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