Lineage for Protein: automated matches

  1. Root: SCOPe 2.08
  2. Class d: Alpha and beta proteins (a+b) [53931] (396 folds)
  3. Fold d.113: Nudix [55810] (1 superfamily)
    beta(2)-alpha-beta(3)-alpha; 3 layers: alpha/beta/alpha; mixed sheet
    contains beta-grasp motif
  4. Superfamily d.113.1: Nudix [55811] (8 families) (S)
  5. Family d.113.1.0: automated matches [191580] (1 protein)
    not a true family
  6. Protein automated matches [191036] (17 species)
    not a true protein

Species:

  1. Bacillus halodurans [TaxId:86665] [340856] (1 PDB entry)
  2. Bacteroides fragilis [TaxId:272559] [188860] (1 PDB entry)
  3. Baker's yeast (Saccharomyces cerevisiae) [TaxId:559292] [235108] (4 PDB entries)
    1. Domain for 2jvb:
    2. Domain for 4k6e:
    3. Domains for 4kg3:
      1. Domain d4kg3a_: 4kg3 A: [240421]
        automated match to d4kg3c_
        protein/RNA complex; complexed with mg; mutant
      2. Domain d4kg3b_: 4kg3 B: [240422]
        automated match to d4kg3c_
        protein/RNA complex; complexed with mg; mutant
      3. Domain d4kg3c_: 4kg3 C: [235161]
        automated match to d2a6tb1
        protein/RNA complex; complexed with mg; mutant
    4. Domains for 4kg4:
      1. Domain d4kg4a_: 4kg4 A: [235162]
        automated match to d2a6tb1
        mutant
      2. Domain d4kg4b_: 4kg4 B: [240423]
        automated match to d4kg4a_
        mutant
  4. Bartonella henselae [TaxId:283166] [225687] (1 PDB entry)
  5. Bdellovibrio bacteriovorus [TaxId:264462] [312720] (3 PDB entries)
    1. Domains for 5c7q:
      1. Domain d5c7qa_: 5c7q A: [312791]
        automated match to d1vhzb_
        complexed with gol, peg, pg0, pge, so4
      2. Domain d5c7qb_: 5c7q B: [312721]
        automated match to d1vhzb_
        complexed with gol, peg, pg0, pge, so4
    2. Domains for 5c7t:
      1. Domain d5c7ta_: 5c7t A: [312730]
        automated match to d1vhzb_
        complexed with apr, gol, peg, pg0, pge, so4
      2. Domain d5c7tb_: 5c7t B: [312758]
        automated match to d1vhzb_
        complexed with apr, gol, peg, pg0, pge, so4
    3. Domains for 5c8l:
      1. Domain d5c8la_: 5c8l A: [312735]
        automated match to d1vhzb_
        complexed with glc, gol, peg, so4
      2. Domain d5c8lb_: 5c8l B: [312734]
        automated match to d1vhzb_
        complexed with glc, gol, peg, so4
  6. Bdellovibrio bacteriovorus [TaxId:959] [225632] (4 PDB entries)
    1. Domains for 3ees:
      1. Domain d3eesa_: 3ees A: [209468]
        automated match to d3gwyb_
      2. Domain d3eesb_: 3ees B: [209469]
        automated match to d3gwyb_
    2. Domains for 3eeu:
      1. Domain d3eeua_: 3eeu A: [209470]
        automated match to d3gwyb_
        protein/RNA complex; complexed with act, cl, ho
      2. Domain d3eeub_: 3eeu B: [209471]
        automated match to d3gwyb_
        protein/RNA complex; complexed with act, cl, ho
    3. Domains for 3ef5:
      1. Domain d3ef5a_: 3ef5 A: [209482]
        automated match to d3gwyb_
        protein/RNA complex; complexed with dgt
      2. Domain d3ef5b_: 3ef5 B: [209483]
        automated match to d3gwyb_
        protein/RNA complex; complexed with dgt
    4. Domains for 3ffu:
      1. Domain d3ffua_: 3ffu A: [209890]
        automated match to d3gwyb_
        protein/RNA complex; complexed with gtp, mg
      2. Domain d3ffub_: 3ffu B: [209891]
        automated match to d3gwyb_
        protein/RNA complex; complexed with gtp, mg
  7. Burkholderia pseudomallei [TaxId:320372] [256243] (1 PDB entry)
  8. Chlamydia trachomatis [TaxId:471472] [230253] (2 PDB entries)
    1. Domain for 4ilq:
    2. Domains for 4mpo:
      1. Domain d4mpoa_: 4mpo A: [236206]
        automated match to d4ilqa_
        complexed with amp, cl, mg, po4
      2. Domain d4mpob_: 4mpo B: [236205]
        automated match to d4ilqa_
        complexed with amp, cl, mg, po4
      3. Domain d4mpoc_: 4mpo C: [236207]
        automated match to d4ilqa_
        complexed with amp, cl, mg, po4
      4. Domain d4mpod_: 4mpo D: [236208]
        automated match to d4ilqa_
        complexed with amp, cl, mg, po4
      5. Domain d4mpoe_: 4mpo E: [236209]
        automated match to d4ilqa_
        complexed with amp, cl, mg, po4
      6. Domain d4mpof_: 4mpo F: [236210]
        automated match to d4ilqa_
        complexed with amp, cl, mg, po4
      7. Domain d4mpog_: 4mpo G: [236212]
        automated match to d4ilqa_
        complexed with amp, cl, mg, po4
      8. Domain d4mpoh_: 4mpo H: [236211]
        automated match to d4ilqa_
        complexed with amp, cl, mg, po4
  9. Escherichia coli K-12 [TaxId:83333] [255588] (1 PDB entry)
  10. Escherichia coli [TaxId:405955] [188925] (4 PDB entries)
    1. Domains for 3dku:
      1. Domain d3dkua_: 3dku A: [199240]
        automated match to d3shdk_
      2. Domain d3dkub_: 3dku B: [199241]
        automated match to d3dkud_
      3. Domain d3dkuc_: 3dku C: [199242]
        automated match to d3shdk_
      4. Domain d3dkud_: 3dku D: [174044]
        automated match to d2b0va1
      5. Domain d3dkue_: 3dku E: [199243]
        automated match to d3shdk_
      6. Domain d3dkuf_: 3dku F: [199244]
        automated match to d3shdk_
      7. Domain d3dkug_: 3dku G: [199245]
        automated match to d3shdk_
      8. Domain d3dkuh_: 3dku H: [199246]
        automated match to d3dkud_
    2. Domains for 3shd:
      1. Domain d3shda_: 3shd A: [200659]
        automated match to d3shdk_
        complexed with mn, so4
      2. Domain d3shdb_: 3shd B: [200660]
        automated match to d3shdk_
        complexed with mn, so4
      3. Domain d3shdc_: 3shd C: [200661]
        automated match to d3shdk_
        complexed with mn, so4
      4. Domain d3shdd_: 3shd D: [200662]
        automated match to d3shdk_
        complexed with mn, so4
      5. Domain d3shde_: 3shd E: [200663]
        automated match to d3shdk_
        complexed with mn, so4
      6. Domain d3shdf_: 3shd F: [200664]
        automated match to d3shdk_
        complexed with mn, so4
      7. Domain d3shdg_: 3shd G: [200665]
        automated match to d3shdk_
        complexed with mn, so4
      8. Domain d3shdh_: 3shd H: [195041]
        automated match to d3dkud_
        complexed with mn, so4
      9. Domain d3shdi_: 3shd I: [195040]
        automated match to d3dkud_
        complexed with mn, so4
      10. Domain d3shdj_: 3shd J: [195039]
        automated match to d3dkud_
        complexed with mn, so4
      11. Domain d3shdk_: 3shd K: [195038]
        automated match to d3dkud_
        complexed with mn, so4
      12. Domain d3shdl_: 3shd L: [200666]
        automated match to d3shdk_
        complexed with mn, so4
    3. Domains for 4nfw:
      1. Domain d4nfwa_: 4nfw A: [257144]
        automated match to d3dkua_
        complexed with mn, so4
      2. Domain d4nfwb_: 4nfw B: [263131]
        automated match to d3dkua_
        complexed with mn, so4
      3. Domain d4nfwc_: 4nfw C: [263132]
        automated match to d3dkua_
        complexed with mn, so4
      4. Domain d4nfwd_: 4nfw D: [263133]
        automated match to d3dkua_
        complexed with mn, so4
      5. Domain d4nfwe_: 4nfw E: [263134]
        automated match to d3dkua_
        complexed with mn, so4
      6. Domain d4nfwf_: 4nfw F: [263135]
        automated match to d3dkua_
        complexed with mn, so4
      7. Domain d4nfwg_: 4nfw G: [263136]
        automated match to d3dkua_
        complexed with mn, so4
      8. Domain d4nfwh_: 4nfw H: [263137]
        automated match to d3dkua_
        complexed with mn, so4
      9. Domain d4nfwi_: 4nfw I: [263138]
        automated match to d3dkua_
        complexed with mn, so4
      10. Domain d4nfwj_: 4nfw J: [263139]
        automated match to d3dkua_
        complexed with mn, so4
      11. Domain d4nfwk_: 4nfw K: [263140]
        automated match to d3dkua_
        complexed with mn, so4
      12. Domain d4nfwl_: 4nfw L: [263141]
        automated match to d3dkua_
        complexed with mn, so4
    4. Domains for 4nfx:
      1. Domain d4nfxa_: 4nfx A: [266920]
        automated match to d3dkua_
      2. Domain d4nfxb_: 4nfx B: [266921]
        automated match to d3dkua_
      3. Domain d4nfxc_: 4nfx C: [266922]
        automated match to d3dkua_
      4. Domain d4nfxd_: 4nfx D: [266923]
        automated match to d3dkua_
      5. Domain d4nfxe_: 4nfx E: [266924]
        automated match to d3dkua_
      6. Domain d4nfxf_: 4nfx F: [266925]
        automated match to d3dkua_
      7. Domain d4nfxg_: 4nfx G: [266926]
        automated match to d3dkua_
      8. Domain d4nfxh_: 4nfx H: [266927]
        automated match to d3dkua_
  11. Human (Homo sapiens) [TaxId:9606] [225626] (39 PDB entries)
    1. Domain for 3gg6:
    2. Domain for 3kvh:
    3. Domain for 4hvy:
    4. Domain for 5mp0:
    5. Domain for 5qoh:
    6. Domain for 5qoi:
    7. Domain for 5qoj:
    8. Domain for 5qok:
    9. Domain for 5qol:
    10. Domain for 5qom:
    11. Domain for 5qon:
    12. Domain for 5qoo:
    13. Domain for 5qop:
    14. Domain for 5qoq:
    15. Domain for 5qor:
    16. Domain for 5qos:
    17. Domain for 5qot:
    18. Domain for 5qou:
    19. Domain for 5qov:
    20. Domain for 5qow:
    21. Domain for 5qox:
    22. Domain for 5qoy:
    23. Domain for 5qoz:
    24. Domain for 5qp0:
    25. Domain for 5qp1:
    26. Domain for 5qp2:
    27. Domain for 5qp3:
    28. Domain for 5qp4:
    29. Domain for 5qp5:
    30. Domain for 5qp6:
    31. Domain for 5qp7:
    32. Domain for 5qp8:
    33. Domain for 5qp9:
    34. Domain for 5qpa:
    35. Domain for 5qpb:
    36. Domain for 5qpc:
    37. Domains for 5zcj:
      1. Domain d5zcja_: 5zcj A: [354156]
        Other proteins in same PDB: d5zcjc1, d5zcjc2
        automated match to d3kvha_
      2. Domain d5zcjb_: 5zcj B: [354095]
        Other proteins in same PDB: d5zcjc1, d5zcjc2
        automated match to d3kvha_
    38. Domains for 6co1:
      1. Domain d6co1a_: 6co1 A: [353173]
        Other proteins in same PDB: d6co1e1, d6co1e2, d6co1f1, d6co1f2
        automated match to d3kvha_
        protein/DNA complex
      2. Domain d6co1b_: 6co1 B: [353174]
        Other proteins in same PDB: d6co1e1, d6co1e2, d6co1f1, d6co1f2
        automated match to d3kvha_
        protein/DNA complex
      3. Domain d6co1c_: 6co1 C: [353203]
        Other proteins in same PDB: d6co1e1, d6co1e2, d6co1f1, d6co1f2
        automated match to d3kvha_
        protein/DNA complex
      4. Domain d6co1d_: 6co1 D: [353266]
        Other proteins in same PDB: d6co1e1, d6co1e2, d6co1f1, d6co1f2
        automated match to d3kvha_
        protein/DNA complex
    39. Domains for 6d0l:
      1. Domain d6d0la_: 6d0l A: [353210]
        automated match to d3kvha_
      2. Domain d6d0lb_: 6d0l B: [353209]
        automated match to d3kvha_
  12. Mouse (Mus musculus) [TaxId:10090] [316181] (2 PDB entries)
    1. Domains for 4zg0:
      1. Domain d4zg0a_: 4zg0 A: [316182]
        automated match to d3kvha_
      2. Domain d4zg0b_: 4zg0 B: [316199]
        automated match to d3kvha_
    2. Domains for 5z78:
      1. Domain d5z78a1: 5z78 A:6-204 [353396]
        Other proteins in same PDB: d5z78a2, d5z78c1, d5z78c2, d5z78c3
        automated match to d3kvha_
        protein/DNA complex
      2. Domain d5z78b_: 5z78 B: [353370]
        Other proteins in same PDB: d5z78a2, d5z78c1, d5z78c2, d5z78c3
        automated match to d3kvha_
        protein/DNA complex
  13. Mycobacterium smegmatis [TaxId:246196] [368261] (8 PDB entries)
    1. Domain for 5zrc:
    2. Domain for 5zrg:
    3. Domain for 5zrh:
    4. Domain for 5zri:
    5. Domains for 5zrk:
      1. Domain d5zrka_: 5zrk A: [368274]
        automated match to d3eeua_
        complexed with dcp
      2. Domain d5zrkb_: 5zrk B: [368275]
        automated match to d3eeua_
        complexed with dcp
    6. Domains for 5zrl:
      1. Domain d5zrla_: 5zrl A: [368277]
        automated match to d3eeua_
        complexed with cdp, edo
      2. Domain d5zrlb_: 5zrl B: [368272]
        automated match to d3eeua_
        complexed with cdp, edo
    7. Domains for 5zro:
      1. Domain d5zroa_: 5zro A: [368268]
        automated match to d3eeua_
        complexed with 523, edo
      2. Domain d5zrob_: 5zro B: [368267]
        automated match to d3eeua_
        complexed with 523, edo
    8. Domain for 5zrp:
  14. Plasmodium falciparum [TaxId:36329] [312746] (2 PDB entries)
    1. Domains for 5cfi:
      1. Domain d5cfia_: 5cfi A: [313134]
        automated match to d1kt9a_
      2. Domain d5cfib_: 5cfi B: [313162]
        automated match to d1kt9a_
      3. Domain d5cfic_: 5cfi C: [312794]
        automated match to d1kt9a_
      4. Domain d5cfid_: 5cfi D: [312747]
        automated match to d1kt9a_
    2. Domain for 5cfj:
  15. Rhodospirillum rubrum [TaxId:269796] [189854] (1 PDB entry)
  16. Staphylococcus aureus [TaxId:548470] [330265] (1 PDB entry)
  17. Vibrio cholerae [TaxId:666] [270713] (1 PDB entry)

More info for Protein automated matches from d.113.1.0: automated matches

Timeline for Protein automated matches from d.113.1.0: automated matches: