Structural Classification of Proteins
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Fold: Anticodon-binding domain-like

3 layers: a/b/a; mixed beta-sheet of five strands, order 21345; strand 4 is antiparallel to the rest

Lineage:

  1. Root: scop
  2. Class: Alpha and beta proteins (a/b) [51349]
    Mainly parallel beta sheets (beta-alpha-beta units)
  3. Fold: Anticodon-binding domain-like [52953]
    3 layers: a/b/a; mixed beta-sheet of five strands, order 21345; strand 4 is antiparallel to the rest

Superfamilies:

  1. Class II aaRS ABD-related [52954] (2)
    link to SUPERFAMILY database - Superfamily
    1. Anticodon-binding domain of Class II aaRS [52955] (13)
      1. Histidyl-tRNA synthetase (HisRS), C-terminal domain [52956]
        1. Escherichia coli [TaxId: 562] [52957] (7)
          1. 1kmm picpicxref
            complexed with ham
            1. region a:326-424 [33174] picpiclink
            2. region b:326-424 [33175] picpiclink
            3. region c:326-424 [33176] picpiclink
            4. region d:326-424 [33177] picpiclink
          2. 2el9 picpicxrefxrefxrefxref
            automatically matched to d1htta1
            complexed with hss
            1. region a:326-424 [146887] picpiclink
          3. 2el9 picpicxrefxrefxrefxref
            automatically matched to d1htta1
            complexed with hss
            1. region b:326-424 [146889] picpiclink
          4. 2el9 picpicxrefxrefxrefxref
            automatically matched to d1htta1
            complexed with hss
            1. region c:326-424 [146891] picpiclink
          5. 2el9 picpicxrefxrefxrefxref
            automatically matched to d1htta1
            complexed with hss
            1. region d:326-424 [146893] picpiclink
          6. 1htt picpicxref
            complexed with amp
            1. region a:326-424 [33178] picpiclink
            2. region b:326-424 [33179] picpiclink
            3. region c:326-424 [33180] picpiclink
            4. region d:326-424 [33181] picpiclink
          7. 1kmn picpicxref
            complexed with atp, hso
            1. region a:326-424 [33182] picpiclink
            2. region b:326-424 [33183] picpiclink
            3. region c:326-424 [33184] picpiclink
            4. region d:326-424 [33185] picpiclink
        2. Staphylococcus aureus [TaxId: 1280] [52958] (1)
          1. 1qe0 picpicxref
            1. region a:326-420 [33186] picpiclink
            2. region b:326-419 [33187] picpiclink
        3. Thermus thermophilus [TaxId: 274] [52959] (3)
          1. 1h4v picpicxref
            complexed with so4
            1. region b:326-421 [60624] picpiclink
          2. 1adj picpicxref
            complexed with so4
            1. region a:326-421 [33188] picpiclink
            2. region b:326-421 [33189] picpiclink
            3. region c:326-421 [33190] picpiclink
            4. region d:326-421 [33191] picpiclink
          3. 1ady picpicxref
            complexed with ham, so4
            1. region a:326-421 [33192] picpiclink
            2. region b:326-421 [33193] picpiclink
            3. region c:326-421 [33194] picpiclink
            4. region d:326-421 [33195] picpiclink
        4. Archaeon Thermoplasma acidophilum [TaxId: 2303] [142418] (2)
          SQ Q9HLX5 330-426
          1. 1wu7 picpicxrefxref
            1. region a:330-426 [121275] picpiclink
          2. 1wu7 picpicxrefxref
            automatically matched to 1WU7 A:330-426
            1. region b:330-424 [121277] picpiclink
      2. Glycyl-tRNA synthetase (GlyRS), C-terminal domain [52960]
        1. Thermus thermophilus [TaxId: 274] [52961] (3)
          1. 1ati picpicxref
            1. region a:395-505 [33196] picpiclink
            2. region b:395-505 [33197] picpiclink
          2. 1b76 picpicxref
            complexed with atp
            1. region a:395-505 [33198] picpiclink
            2. region b:395-505 [33199] picpiclink
          3. 1ggm picpicxref
            complexed with gap
            1. region a:395-505 [33200] picpiclink
            2. region b:395-505 [33201] picpiclink
      3. Threonyl-tRNA synthetase (ThrRS), C-terminal domain [52962]
        1. Escherichia coli [TaxId: 562] [52963] (5)
          1. 1qf6 picpicxrefxrefxref
            complexed with aet, amp, dhu, g7m, psu, zn
            1. region a:533-642 [33210] picpiclink
          2. 1evl picpicxref
            a truncated form of the enzyme
            complexed with tsb, zn
            1. region a:533-642 [33202] picpiclink
            2. region b:533-642 [33203] picpiclink
            3. region c:533-642 [33204] picpiclink
            4. region d:533-642 [33205] picpiclink
          3. 1fyf picpicxref
            a truncated form of the enzyme
            complexed with ssa, zn
            1. region a:533-642 [33206] picpiclink
            2. region b:533-642 [33207] picpiclink
          4. 1evk picpicxref
            a truncated form of the enzyme
            complexed with thr, zn
            1. region a:533-642 [33208] picpiclink
            2. region b:533-642 [33209] picpiclink
          5. 1kog picpicxref
            a truncated form of the enzyme
            complexed with tsb, zn; mutant
            1. region a:533-642 [72805] picpiclink
            2. region b:533-642 [72807] picpiclink
            3. region c:533-642 [72809] picpiclink
            4. region d:533-642 [72811] picpiclink
            5. region e:533-642 [72813] picpiclink
            6. region f:533-642 [72815] picpiclink
            7. region g:533-642 [72817] picpiclink
            8. region h:533-642 [72819] picpiclink
        2. Staphylococcus aureus [TaxId: 1280] [102469] (2)
          1. 1nyr picpicxrefxrefxref
            complexed with atp, thr, zn
            1. region a:533-645 [92354] picpiclink
            2. region b:533-645 [92358] picpiclink
          2. 1nyq picpicxrefxrefxref
            complexed with tsb, zn
            1. region a:533-645 [92346] picpiclink
            2. region b:533-645 [92350] picpiclink
      4. Prolyl-tRNA synthetase (ProRS) domain [64071]
        1. Thermus thermophilus [TaxId: 274] [64072] (4)
          1. 1hc7 picpicxrefxref
            complexed with zn
            1. region a:277-403 [60938] picpiclink
            2. region b:277-403 [60941] picpiclink
            3. region c:277-403 [60944] picpiclink
            4. region d:277-403 [60947] picpiclink
          2. 1h4t picpicxrefxref
            complexed with pro, zn
            1. region a:277-403 [60610] picpiclink
            2. region b:277-403 [60613] picpiclink
            3. region c:277-403 [60616] picpiclink
            4. region d:277-403 [60619] picpiclink
          3. 1h4s picpicxrefxref
            complexed with 5mu, psd, psu, so4, zn
            1. region a:277-403 [60604] picpiclink
            2. region b:277-403 [60607] picpiclink
          4. 1h4q picpicxrefxref
            complexed with 5mu, atp, pri, psu, so4, zn
            1. region a:277-403 [60598] picpiclink
            2. region b:277-403 [60601] picpiclink
        2. Arhaeon (Methanothermobacter thermautotrophicus) [TaxId: 145262] [89714] (4)
          1. 1nj1 picpicxrefxref
            complexed with 5ca, mg, zn
            1. region a:284-410 [85755] picpiclink
          2. 1nj5 picpicxrefxref
            complexed with mg, p5a, zn
            1. region a:284-410 [85762] picpiclink
          3. 1nj6 picpicxrefxref
            complexed with a5a, mg, zn
            1. region a:284-410 [85765] picpiclink
          4. 1nj2 picpicxrefxref
            complexed with mg, zn
            1. region a:284-410 [85758] picpiclink
        3. Archaeon (Methanocaldococcus jannaschii) [TaxId: 2190] [89715] (1)
          1. 1nj8 picpicxrefxref
            1. region a:268-393 [85769] picpiclink
            2. region b:268-393 [85772] picpiclink
            3. region c:268-393 [85775] picpiclink
            4. region d:268-393 [85778] picpiclink
      5. The aaRS-like accessory subunit of mitochondrial polymerase gamma, C-terminal domain [64073]
        1. Mouse (Mus musculus) [TaxId: 10090] [64074] (2)
          1. 1g5h picpicxref
            complexed with gol, na
            1. region a:343-469 [60270] picpiclink
            2. region b:343-460 [60272] picpiclink
            3. region c:343-469 [60274] picpiclink
            4. region d:338-468 [60276] picpiclink
          2. 1g5i picpicxref
            complexed with gol, na
            1. region a:343-469 [60278] picpiclink
            2. region b:343-460 [60280] picpiclink
            3. region c:343-469 [60282] picpiclink
            4. region d:338-468 [60284] picpiclink
        2. Human (Homo sapiens) [TaxId: 9606] [142419] (4)
          SQ Q9UHN1 369-485
          1. 2g4c picpicxrefxrefxrefxref
            1. region a:369-485 [134582] picpiclink
          2. 2g4c picpicxrefxrefxrefxref
            automatically matched to 2G4C A:369-485
            1. region b:369-485 [134584] picpiclink
          3. 2g4c picpicxrefxrefxrefxref
            automatically matched to 2G4C A:369-485
            1. region c:369-485 [134586] picpiclink
          4. 2g4c picpicxrefxrefxrefxref
            automatically matched to 2G4C A:369-485
            1. region d:369-485 [134588] picpiclink
      6. Nuclear receptor coactivator 5 (KIAA1637) [110619]
        1. Human (Homo sapiens) [TaxId: 9606] [110620] (1)
          SQ Q9HCD5 197-313
          1. 1v95 picpic
            Structural genomics target
            1. chain a [108435] picpiclink
    2. Brix domain [142420] (2)
      Pfam 04427; tandem repeat of two ABD-like structural repeats, which are associated together with the formation of single beta-sheet, folded into half-barrel
      1. Probable ribosomal biogenesis protein [142421]
        comprises stand-alone brix domain
        1. Methanobacterium thermoautotrophicum [TaxId: 145262] [142422] (2)
          SQ O26776 1-154
          MTH680
          1. 1w94 picpic
            1. region a:1-154 [120774] picpiclink
          2. 1w94 picpic
            automatically matched to 1W94 A:1-154
            1. region b:1-154 [120775] picpiclink
        2. Archaeon Aeropyrum pernix [TaxId: 56636] [142423] (1)
          SQ Q9YC08 13-192
          APE1443
          1. 2cxh picpic
            1. region a:13-192 [131005] picpiclink
  2. TolB, N-terminal domain [52964] (1)
    link to SUPERFAMILY database - Superfamily
    1. TolB, N-terminal domain [52965] (1)
      1. TolB, N-terminal domain [52966]
        1. Escherichia coli [TaxId: 562] [52967] (10)
          1. 2hqs picpicxrefxrefxrefxrefxrefxrefxrefxref
            automatically matched to d1crza2
            complexed with act, gol, so4
            1. region a:29-162 [136663] picpiclink
          2. 2hqs picpicxrefxrefxrefxrefxrefxrefxrefxref
            automatically matched to d1crza2
            complexed with act, gol, so4
            1. region b:29-162 [136665] picpiclink
          3. 2hqs picpicxrefxrefxrefxrefxrefxrefxrefxref
            automatically matched to d1crza2
            complexed with act, gol, so4
            1. region d:29-162 [136668] picpiclink
          4. 2hqs picpicxrefxrefxrefxrefxrefxrefxrefxref
            automatically matched to d1crza2
            complexed with act, gol, so4
            1. region f:29-162 [136671] picpiclink
          5. 2ivz picpicxrefxrefxrefxref
            automatically matched to d1crza2
            complexed with ca
            1. region a:35-162 [137730] picpiclink
          6. 2ivz picpicxrefxrefxrefxref
            automatically matched to d1crza2
            complexed with ca
            1. region b:35-162 [137732] picpiclink
          7. 2ivz picpicxrefxrefxrefxref
            automatically matched to d1crza2
            complexed with ca
            1. region c:35-162 [137734] picpiclink
          8. 2ivz picpicxrefxrefxrefxref
            automatically matched to d1crza2
            complexed with ca
            1. region d:35-162 [137736] picpiclink
          9. 1crz picpicxref
            1. region a:7-140 [33211] picpiclink
          10. 1c5k picpicxref
            complexed with yb
            1. region a:35-162 [33212] picpiclink
  3. B12-dependent dehydatase associated subunit [52968] (2)
    link to SUPERFAMILY database - Superfamily
    1. Diol dehydratase, beta subunit [52969] (2)
      contains additional structures in the C-terminal extension
      1. Diol dehydratase, beta subunit [52970]
        1. Klebsiella oxytoca [TaxId: 571] [52971] (7)
          1. 1egv picpicxrefxref
            complexed with coy, k, pgo
            1. chain b [33215] picpiclink
            2. chain e [33216] picpiclink
          2. 1eex picpicxrefxref
            complexed with coy, k, pgo
            1. chain b [33213] picpiclink
            2. chain e [33214] picpiclink
          3. 1uc4 picpicxrefxref
            complexed with cnc, k, nh4, pgq
            1. chain b [88451] picpiclink
            2. chain e [88452] picpiclink
          4. 1egm picpicxrefxref
            complexed with cnc, k, pgo
            1. chain b [33217] picpiclink
            2. chain e [33218] picpiclink
          5. 1iwb picpicxrefxref
            complexed with b12, k
            1. chain b [83751] picpiclink
            2. chain e [83752] picpiclink
          6. 1dio picpicxrefxref
            1. chain b [33219] picpiclink
            2. chain e [33220] picpiclink
          7. 1uc5 picpicxrefxref
            complexed with cnc, k, nh4, pgr
            1. chain b [88457] picpiclink
            2. chain e [88458] picpiclink
        2. Klebsiella pneumoniae [TaxId: 573] [82432] (2)
          1. 1iwp picpicxrefxref
            complexed with b12, k, pgo
            1. chain b [76885] picpiclink
            2. chain e [76886] picpiclink
          2. 1mmf picpicxrefxref
            complexed with b12, k
            1. chain b [85019] picpiclink
            2. chain e [85020] picpiclink
    2. Dehydratase-reactivating factor beta subunit [82433] (2)
      1. Glycerol dehydratase reactivase, beta subunit [82434]
        1. Klebsiella pneumoniae [TaxId: 573] [82435] (1)
          1. 1nbw picpicxrefxref
            complexed with ca
            1. chain b [80396] picpiclink
            2. chain d [80400] picpiclink
      2. Diol dehydratase-reactivating factor small subunit DdrB [142424]
        1. Klebsiella oxytoca [TaxId: 571] [142425] (4)
          SQ O68196 5-112
          1. 2d0o picpicxrefxrefxrefxrefxrefxref
            complexed with adp, mg, so4
            1. region b:5-112 [131078] picpiclink
          2. 2d0o picpicxrefxrefxrefxrefxrefxref
            automatically matched to 2D0O B:5-112
            complexed with adp, mg, so4
            1. region d:6-112 [131082] picpiclink
          3. 2d0p picpicxrefxrefxrefxrefxrefxref
            automatically matched to 2D0O B:5-112
            complexed with ca, so4
            1. region b:5-112 [131086] picpiclink
          4. 2d0p picpicxrefxrefxrefxrefxrefxref
            automatically matched to 2D0O B:5-112
            complexed with ca, so4
            1. region d:5-112 [131090] picpiclink
  4. ITPase-like [52972] (3)
    formerly Maf/Ham1; elaborated with additional structures inserted in the common fold
    link to SUPERFAMILY database - Superfamily
    1. ITPase (Ham1) [52973] (5)
      Pfam 01725
      1. XTP pyrophosphatase [52974]
        1. Archaeon Methanococcus jannaschii [TaxId: 2190] [52975] (2)
          MJ0226
          1. 1b78 picpic
            1. chain a [33221] picpiclink
            2. chain b [33222] picpiclink
          2. 2mjp picpic
            structural genomics
            1. chain a [33223] picpiclink
            2. chain b [33224] picpiclink
        2. Archaeon Pyrococcus horikoshii [TaxId: 53953] [102470] (6)
          PH1917
          1. 1v7r picpic
            structural genomics
            complexed with cit
            1. chain a [100482] picpiclink
          2. 2dvn picpic
            automatically matched to d1v7ra_
            complexed with gol, imp, so4
            1. region a:1-186 [146590] picpiclink
          3. 2dvn picpic
            automatically matched to d1v7ra_
            complexed with gol, imp, so4
            1. region b:1-186 [146591] picpiclink
          4. 2dvo picpic
            automatically matched to d1v7ra_
            complexed with itt, na
            1. region a:1-185 [146592] picpiclink
          5. 2dvp picpic
            automatically matched to d1v7ra_
            1. region a:1-184 [146593] picpiclink
          6. 2zti picpic
            automatically matched to d1v7ra_
            complexed with mn
            1. region a:1-184 [154767] picpiclink
      2. Hypothetical protein YggV [75242]
        annotated as putative ribosomal protein
        1. Escherichia coli [TaxId: 562] [75243] (1)
          1. 1k7k picpic
            complexed with mse
            1. chain a [72104] picpiclink
      3. Putative inosine/xanthosine triphosphate pyrophosphatase TM0159 [117615]
        1. Thermotoga maritima [TaxId: 2336] [117616] (1)
          SQ Q9WY06
          1. 1vp2 picpic
            Structural genomics target
            complexed with so4
            1. chain a [113933] picpiclink
            2. chain b [113934] picpiclink
      4. Inosine triphosphate pyrophosphatase, ITPase [142426]
        1. Human (Homo sapiens) [TaxId: 9606] [142427] (11)
          SQ Q9BY32 1-194
          1. 2car picpic
            1. region a:1-194 [130161] picpiclink
          2. 2car picpic
            automatically matched to 2CAR A:1-194
            1. region b:1-194 [130162] picpiclink
          3. 2i5d picpic
            automatically matched to 2CAR A:1-194
            1. region a:1-194 [137061] picpiclink
          4. 2j4e picpic
            automatically matched to 2CAR A:1-194
            complexed with imp, itt, mg, pop
            1. region a:2-190 [137994] picpiclink
          5. 2j4e picpic
            automatically matched to 2CAR A:1-194
            complexed with imp, itt, mg, pop
            1. region b:1-193 [137995] picpiclink
          6. 2j4e picpic
            automatically matched to 2CAR A:1-194
            complexed with imp, itt, mg, pop
            1. region c:1-193 [137996] picpiclink
          7. 2j4e picpic
            automatically matched to 2CAR A:1-194
            complexed with imp, itt, mg, pop
            1. region d:1-194 [137997] picpiclink
          8. 2j4e picpic
            automatically matched to 2CAR A:1-194
            complexed with imp, itt, mg, pop
            1. region e:1-189 [137998] picpiclink
          9. 2j4e picpic
            automatically matched to 2CAR A:1-194
            complexed with imp, itt, mg, pop
            1. region f:1-193 [137999] picpiclink
          10. 2j4e picpic
            automatically matched to 2CAR A:1-194
            complexed with imp, itt, mg, pop
            1. region g:1-190 [138000] picpiclink
          11. 2j4e picpic
            automatically matched to 2CAR A:1-194
            complexed with imp, itt, mg, pop
            1. region h:3-190 [138001] picpiclink
    2. Maf-like [52976] (2)
      1. Maf protein [52977]
        1. Bacillus subtilis [TaxId: 1423] [52978] (2)
          1. 1ex2 picpic
            complexed with po4, suc
            1. chain a [33225] picpiclink
            2. chain b [33226] picpiclink
          2. 1exc picpic
            structural genomics
            complexed with dut, na
            1. chain a [33227] picpiclink
            2. chain b [33228] picpiclink
      2. Maf homologue Tb11.01.5890 [142428]
        1. Trypanosoma brucei [TaxId: 5691] [142429] (1)
          SQ Q382A9 3-203
          1. 2amh picpic
            complexed with mn, so4
            1. region a:7-207 [127019] picpiclink
    3. YjjX-like [110621] (3)
      Pfam 01931
      1. Hypothetical protein YjjX [110622]
        1. Salmonella typhimurium [TaxId: 90371] [110623] (1)
          SQ P39432
          1. 1u14 picpic
            Structural genomics target
            complexed with po4
            1. chain a [107579] picpiclink
        2. Escherichia coli [TaxId: 562] [142430] (8)
          SQ P39411 1-170
          1. 1u5w picpic
            complexed with so4
            1. region a:4-173 [119553] picpiclink
          2. 1u5w picpic
            automatically matched to 1U5W A:4-173
            complexed with so4
            1. region b:4-173 [119554] picpiclink
          3. 1u5w picpic
            automatically matched to 1U5W A:4-173
            complexed with so4
            1. region c:4-173 [119555] picpiclink
          4. 1u5w picpic
            automatically matched to 1U5W A:4-173
            complexed with so4
            1. region d:4-173 [119556] picpiclink
          5. 1u5w picpic
            automatically matched to 1U5W A:4-173
            complexed with so4
            1. region e:4-173 [119557] picpiclink
          6. 1u5w picpic
            automatically matched to 1U5W A:4-173
            complexed with so4
            1. region f:4-173 [119558] picpiclink
          7. 1u5w picpic
            automatically matched to 1U5W A:4-173
            complexed with so4
            1. region g:4-173 [119559] picpiclink
          8. 1u5w picpic
            automatically matched to 1U5W A:4-173
            complexed with so4
            1. region h:4-173 [119560] picpiclink
      2. Hypothetical protein VC0702 [142431]
        1. Vibrio cholerae [TaxId: 666] [142432] (6)
          SQ Q9KU27 9-181
          1. 1zwy picpic
            1. region a:9-181 [125753] picpiclink
          2. 1zwy picpic
            automatically matched to 1ZWY A:9-181
            1. region b:9-181 [125754] picpiclink
          3. 1zwy picpic
            automatically matched to 1ZWY A:9-181
            1. region c:9-181 [125755] picpiclink
          4. 1zwy picpic
            automatically matched to 1ZWY A:9-181
            1. region d:10-181 [125756] picpiclink
          5. 1zno picpic
            automatically matched to 1ZWY A:9-181
            complexed with mg
            1. region a:10-181 [125392] picpiclink
          6. 1zno picpic
            automatically matched to 1ZWY A:9-181
            complexed with mg
            1. region b:10-181 [125393] picpiclink
  5. CinA-like [142433] (1)
    link to SUPERFAMILY database - Superfamily
    1. CinA-like [142434] (1)
      Pfam 02464
      1. Competence/damage-inducible protein CinA [142435]
        1. Agrobacterium tumefaciens [TaxId: 358] [142436] (2)
          SQ Q8UFF5 1-167
          1. 2a9s picpic
            complexed with cl
            1. region a:1-167 [126448] picpiclink
          2. 2a9s picpic
            automatically matched to 2A9S A:1-167
            complexed with cl
            1. region b:1-165 [126449] picpiclink
  6. XCC0632-like [159594] (2)
    short crossover loop between strands 2 and 3; the antiparallel part of the beta-sheet (strands 3, 4 and 5) and the C-terminal helix are quite long
    1. NLBH-like [159595] (1)
      Pfam 05211; Neuraminyllactose-binding hemagglutinin
      1. Hypothetical protein HP0492 [159596]
        1. Helicobacter pylori [TaxId: 210] [159597] (1)
          SQ O25234 51-271
          1. 2i9i picpic
            1. region a:51-271 [147571] picpiclink
    2. XCC0632-like [159598] (1)
      Pfam 03886; DUF330
      1. Hypothetical protein XCC0632 [159599]
        1. Xanthomonas campestris pv. campestris [TaxId: 340] [159600] (8)
          SQ Q8PCT0 32-209
          1. 2iqi picpic
            1. region a:32-209 [147777] picpiclink
          2. 2iqi picpic
            automatically matched to 2IQI A:32-209
            1. region b:33-209 [147778] picpiclink
          3. 2iqi picpic
            automatically matched to 2IQI A:32-209
            1. region c:33-209 [147779] picpiclink
          4. 2iqi picpic
            automatically matched to 2IQI A:32-209
            1. region d:33-209 [147780] picpiclink
          5. 2iqi picpic
            automatically matched to 2IQI A:32-209
            1. region e:33-209 [147781] picpiclink
          6. 2iqi picpic
            automatically matched to 2IQI A:32-209
            1. region f:32-209 [147782] picpiclink
          7. 2iqi picpic
            automatically matched to 2IQI A:32-209
            1. region g:33-209 [147783] picpiclink
          8. 2iqi picpic
            automatically matched to 2IQI A:32-209
            1. region h:33-209 [147784] 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