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 Protein: automated matches

  1. Root: SCOPe 2.06
  2. 2152203Class d: Alpha and beta proteins (a+b) [53931] (385 folds)
  3. 2189565Fold d.113: Nudix [55810] (1 superfamily)
    beta(2)-alpha-beta(3)-alpha; 3 layers: alpha/beta/alpha; mixed sheet
    contains beta-grasp motif
  4. 2189566Superfamily d.113.1: Nudix [55811] (8 families) (S)
  5. 2189861Family d.113.1.0: automated matches [191580] (1 protein)
    not a true family
  6. 2189862Protein automated matches [191036] (15 species)
    not a true protein

Species:

  1. 2189863Bacteroides fragilis [TaxId:272559] [188860] (1 PDB entry)
  2. 2189866Baker's yeast (Saccharomyces cerevisiae) [TaxId:559292] [235108] (4 PDB entries)
    1. Domain for 2jvb:
    2. Domain for 4k6e:
    3. Domains for 4kg3:
      1. 2189867Domain d4kg3a_: 4kg3 A: [240421]
        automated match to d4kg3c_
        protein/RNA complex; complexed with mg; mutant
      2. 2189868Domain d4kg3b_: 4kg3 B: [240422]
        automated match to d4kg3c_
        protein/RNA complex; complexed with mg; mutant
      3. 2189869Domain d4kg3c_: 4kg3 C: [235161]
        automated match to d2a6tb1
        protein/RNA complex; complexed with mg; mutant
    4. Domains for 4kg4:
      1. 2189870Domain d4kg4a_: 4kg4 A: [235162]
        automated match to d2a6tb1
        mutant
      2. 2189871Domain d4kg4b_: 4kg4 B: [240423]
        automated match to d4kg4a_
        mutant
  3. 2189874Bartonella henselae [TaxId:283166] [225687] (1 PDB entry)
  4. 2189877Bdellovibrio bacteriovorus [TaxId:959] [225632] (4 PDB entries)
    1. Domains for 3ees:
      1. 2189878Domain d3eesa_: 3ees A: [209468]
        automated match to d3gwyb_
      2. 2189879Domain d3eesb_: 3ees B: [209469]
        automated match to d3gwyb_
    2. Domains for 3eeu:
      1. 2189880Domain d3eeua_: 3eeu A: [209470]
        automated match to d3gwyb_
        protein/RNA complex; complexed with act, cl, ho
      2. 2189881Domain d3eeub_: 3eeu B: [209471]
        automated match to d3gwyb_
        protein/RNA complex; complexed with act, cl, ho
    3. Domains for 3ef5:
      1. 2189882Domain d3ef5a_: 3ef5 A: [209482]
        automated match to d3gwyb_
        protein/RNA complex; complexed with dgt
      2. 2189883Domain d3ef5b_: 3ef5 B: [209483]
        automated match to d3gwyb_
        protein/RNA complex; complexed with dgt
    4. Domains for 3ffu:
      1. 2189884Domain d3ffua_: 3ffu A: [209890]
        automated match to d3gwyb_
        protein/RNA complex; complexed with gtp, mg
      2. 2189885Domain d3ffub_: 3ffu B: [209891]
        automated match to d3gwyb_
        protein/RNA complex; complexed with gtp, mg
  5. 2189886Burkholderia pseudomallei [TaxId:320372] [256243] (1 PDB entry)
  6. 2189889Chlamydia trachomatis [TaxId:471472] [230253] (2 PDB entries)
    1. Domain for 4ilq:
    2. Domains for 4mpo:
      1. 2189890Domain d4mpoa_: 4mpo A: [236206]
        automated match to d4ilqa_
        complexed with amp, cl, mg, po4
      2. 2189891Domain d4mpob_: 4mpo B: [236205]
        automated match to d4ilqa_
        complexed with amp, cl, mg, po4
      3. 2189892Domain d4mpoc_: 4mpo C: [236207]
        automated match to d4ilqa_
        complexed with amp, cl, mg, po4
      4. 2189893Domain d4mpod_: 4mpo D: [236208]
        automated match to d4ilqa_
        complexed with amp, cl, mg, po4
      5. 2189894Domain d4mpoe_: 4mpo E: [236209]
        automated match to d4ilqa_
        complexed with amp, cl, mg, po4
      6. 2189895Domain d4mpof_: 4mpo F: [236210]
        automated match to d4ilqa_
        complexed with amp, cl, mg, po4
      7. 2189896Domain d4mpog_: 4mpo G: [236212]
        automated match to d4ilqa_
        complexed with amp, cl, mg, po4
      8. 2189897Domain d4mpoh_: 4mpo H: [236211]
        automated match to d4ilqa_
        complexed with amp, cl, mg, po4
  7. 2189899Escherichia coli K-12 [TaxId:83333] [255588] (1 PDB entry)
  8. 2189901Escherichia coli [TaxId:405955] [188925] (4 PDB entries)
    1. Domains for 3dku:
      1. 2189902Domain d3dkua_: 3dku A: [199240]
        automated match to d3shdk_
      2. 2189903Domain d3dkub_: 3dku B: [199241]
        automated match to d3dkud_
      3. 2189904Domain d3dkuc_: 3dku C: [199242]
        automated match to d3shdk_
      4. 2189905Domain d3dkud_: 3dku D: [174044]
        automated match to d2b0va1
      5. 2189906Domain d3dkue_: 3dku E: [199243]
        automated match to d3shdk_
      6. 2189907Domain d3dkuf_: 3dku F: [199244]
        automated match to d3shdk_
      7. 2189908Domain d3dkug_: 3dku G: [199245]
        automated match to d3shdk_
      8. 2189909Domain d3dkuh_: 3dku H: [199246]
        automated match to d3dkud_
    2. Domains for 3shd:
      1. 2189910Domain d3shda_: 3shd A: [200659]
        automated match to d3shdk_
        complexed with mn, so4
      2. 2189911Domain d3shdb_: 3shd B: [200660]
        automated match to d3shdk_
        complexed with mn, so4
      3. 2189912Domain d3shdc_: 3shd C: [200661]
        automated match to d3shdk_
        complexed with mn, so4
      4. 2189913Domain d3shdd_: 3shd D: [200662]
        automated match to d3shdk_
        complexed with mn, so4
      5. 2189914Domain d3shde_: 3shd E: [200663]
        automated match to d3shdk_
        complexed with mn, so4
      6. 2189915Domain d3shdf_: 3shd F: [200664]
        automated match to d3shdk_
        complexed with mn, so4
      7. 2189916Domain d3shdg_: 3shd G: [200665]
        automated match to d3shdk_
        complexed with mn, so4
      8. 2189917Domain d3shdh_: 3shd H: [195041]
        automated match to d3dkud_
        complexed with mn, so4
      9. 2189918Domain d3shdi_: 3shd I: [195040]
        automated match to d3dkud_
        complexed with mn, so4
      10. 2189919Domain d3shdj_: 3shd J: [195039]
        automated match to d3dkud_
        complexed with mn, so4
      11. 2189920Domain d3shdk_: 3shd K: [195038]
        automated match to d3dkud_
        complexed with mn, so4
      12. 2189921Domain d3shdl_: 3shd L: [200666]
        automated match to d3shdk_
        complexed with mn, so4
    3. Domains for 4nfw:
      1. 2189922Domain d4nfwa_: 4nfw A: [257144]
        automated match to d3dkua_
        complexed with mn, so4
      2. 2189923Domain d4nfwb_: 4nfw B: [263131]
        automated match to d3dkua_
        complexed with mn, so4
      3. 2189924Domain d4nfwc_: 4nfw C: [263132]
        automated match to d3dkua_
        complexed with mn, so4
      4. 2189925Domain d4nfwd_: 4nfw D: [263133]
        automated match to d3dkua_
        complexed with mn, so4
      5. 2189926Domain d4nfwe_: 4nfw E: [263134]
        automated match to d3dkua_
        complexed with mn, so4
      6. 2189927Domain d4nfwf_: 4nfw F: [263135]
        automated match to d3dkua_
        complexed with mn, so4
      7. 2189928Domain d4nfwg_: 4nfw G: [263136]
        automated match to d3dkua_
        complexed with mn, so4
      8. 2189929Domain d4nfwh_: 4nfw H: [263137]
        automated match to d3dkua_
        complexed with mn, so4
      9. 2189930Domain d4nfwi_: 4nfw I: [263138]
        automated match to d3dkua_
        complexed with mn, so4
      10. 2189931Domain d4nfwj_: 4nfw J: [263139]
        automated match to d3dkua_
        complexed with mn, so4
      11. 2189932Domain d4nfwk_: 4nfw K: [263140]
        automated match to d3dkua_
        complexed with mn, so4
      12. 2189933Domain d4nfwl_: 4nfw L: [263141]
        automated match to d3dkua_
        complexed with mn, so4
    4. Domains for 4nfx:
      1. 2189934Domain d4nfxa_: 4nfx A: [266920]
        automated match to d3dkua_
      2. 2189935Domain d4nfxb_: 4nfx B: [266921]
        automated match to d3dkua_
      3. 2189936Domain d4nfxc_: 4nfx C: [266922]
        automated match to d3dkua_
      4. 2189937Domain d4nfxd_: 4nfx D: [266923]
        automated match to d3dkua_
      5. 2189938Domain d4nfxe_: 4nfx E: [266924]
        automated match to d3dkua_
      6. 2189939Domain d4nfxf_: 4nfx F: [266925]
        automated match to d3dkua_
      7. 2189940Domain d4nfxg_: 4nfx G: [266926]
        automated match to d3dkua_
      8. 2189941Domain d4nfxh_: 4nfx H: [266927]
        automated match to d3dkua_
  9. 2189942Human (Homo sapiens) [TaxId:9606] [225626] (3 PDB entries)
    1. Domain for 3gg6:
    2. Domain for 3kvh:
    3. Domain for 4hvy:
  10. 2189946Rhodospirillum rubrum [TaxId:269796] [189854] (1 PDB entry)
  11. 2189949Vibrio cholerae [TaxId:666] [270713] (1 PDB entry)
  12. 2269414Bdellovibrio bacteriovorus [TaxId:264462] [312720] (3 PDB entries)
    1. Domains for 5c7q:
      1. 2269415Domain d5c7qb_: 5c7q B: [312721]
        automated match to d1vhzb_
        complexed with gol, peg, pg0, pge, so4
      2. 2269485Domain d5c7qa_: 5c7q A: [312791]
        automated match to d1vhzb_
        complexed with gol, peg, pg0, pge, so4
    2. Domains for 5c7t:
      1. 2269424Domain d5c7ta_: 5c7t A: [312730]
        automated match to d1vhzb_
        complexed with apr, gol, peg, pg0, pge, so4
      2. 2269452Domain d5c7tb_: 5c7t B: [312758]
        automated match to d1vhzb_
        complexed with apr, gol, peg, pg0, pge, so4
    3. Domains for 5c8l:
      1. 2269428Domain d5c8lb_: 5c8l B: [312734]
        automated match to d1vhzb_
        complexed with glc, gol, peg, so4
      2. 2269429Domain d5c8la_: 5c8l A: [312735]
        automated match to d1vhzb_
        complexed with glc, gol, peg, so4
  13. 2269440Plasmodium falciparum [TaxId:36329] [312746] (2 PDB entries)
    1. Domains for 5cfi:
      1. 2269441Domain d5cfid_: 5cfi D: [312747]
        automated match to d1kt9a_
      2. 2269488Domain d5cfic_: 5cfi C: [312794]
        automated match to d1kt9a_
      3. 2269829Domain d5cfia_: 5cfi A: [313134]
        automated match to d1kt9a_
      4. 2269857Domain d5cfib_: 5cfi B: [313162]
        automated match to d1kt9a_
    2. Domain for 5cfj:
  14. 2272880Mus musculus [TaxId:10090] [316181] (1 PDB entry)
  15. 2286964Staphylococcus aureus [TaxId:548470] [330265] (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: