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. 2193533Fold d.131: DNA clamp [55978] (1 superfamily)
    contains two helices and two beta sheets
    duplication: fold has internal pseudo two-fold symmetry
  4. 2193534Superfamily d.131.1: DNA clamp [55979] (3 families) (S)
  5. 2193902Family d.131.1.0: automated matches [227185] (1 protein)
    not a true family
  6. 2193903Protein automated matches [226907] (15 species)
    not a true protein

Species:

  1. 2193904Baker's yeast (Saccharomyces cerevisiae) [TaxId:4932] [233237] (1 PDB entry)
  2. 2193906Entamoeba (Entamoeba histolytica) [TaxId:5759] [233155] (1 PDB entry)
  3. 2193909Escherichia coli K-12 [TaxId:83333] [256026] (1 PDB entry)
  4. 2193916Escherichia coli [TaxId:562] [255692] (2 PDB entries)
    1. Domains for 2xur:
      1. 2193923Domain d2xura1: 2xur A:1-122 [244585]
        automated match to d4k3la1
        mutant
      2. 2193924Domain d2xura2: 2xur A:123-244 [244586]
        automated match to d4k3la2
        mutant
      3. 2193925Domain d2xura3: 2xur A:245-366 [244587]
        automated match to d4k3lb3
        mutant
      4. 2193926Domain d2xurb1: 2xur B:1-122 [244588]
        automated match to d4k3la1
        mutant
      5. 2193927Domain d2xurb2: 2xur B:123-244 [244589]
        automated match to d4k3la2
        mutant
      6. 2193928Domain d2xurb3: 2xur B:245-364 [244590]
        automated match to d4k3lb3
        mutant
    2. Domains for 3f1v:
      1. 2193917Domain d3f1va1: 3f1v A:1-122 [246018]
        automated match to d4k3la1
        complexed with ca, cl; mutant
      2. 2193918Domain d3f1va2: 3f1v A:123-244 [246019]
        automated match to d4k3la2
        complexed with ca, cl; mutant
      3. 2193919Domain d3f1va3: 3f1v A:245-366 [246020]
        automated match to d4k3lb3
        complexed with ca, cl; mutant
      4. 2193920Domain d3f1vb1: 3f1v B:1-122 [246021]
        automated match to d4k3la1
        complexed with ca, cl; mutant
      5. 2193921Domain d3f1vb2: 3f1v B:123-244 [246022]
        automated match to d4k3la2
        complexed with ca, cl; mutant
      6. 2193922Domain d3f1vb3: 3f1v B:245-366 [246023]
        automated match to d4k3lb3
        complexed with ca, cl; mutant
  5. 2193929Fruit fly (Drosophila melanogaster) [TaxId:7227] [234655] (1 PDB entry)
  6. Human (Homo sapiens) [TaxId:9606] [254935] (3 PDB entries)
    1. Domains for 1w60:
      1. 2193933Domain d1w60a1: 1w60 A:1-126 [120648]
        automated match to d1plqa1
      2. 2193934Domain d1w60a2: 1w60 A:127-255 [120649]
        automated match to d1plqa2
      3. 2193935Domain d1w60b1: 1w60 B:1-126 [120650]
        automated match to d1plqa1
      4. 2193936Domain d1w60b2: 1w60 B:127-255 [120651]
        automated match to d1plqa2
    2. Domains for 5e0t:
      1. 2272763Domain d5e0ta1: 5e0t A:1-126 [316064]
        automated match to d1plqa1
        mutant
      2. 2272764Domain d5e0ta2: 5e0t A:127-255 [316065]
        automated match to d1plqa2
        mutant
      3. 2272765Domain d5e0tc1: 5e0t C:1-126 [316066]
        automated match to d1plqa1
        mutant
      4. 2272766Domain d5e0tc2: 5e0t C:127-256 [316067]
        automated match to d1plqa2
        mutant
      5. 2272768Domain d5e0tb1: 5e0t B:1-126 [316069]
        automated match to d1plqa1
        mutant
      6. 2272769Domain d5e0tb2: 5e0t B:127-259 [316070]
        automated match to d1plqa2
        mutant
    3. Domains for 5mom:
      1. 2285685Domain d5momb1: 5mom B:1-126 [328986]
        automated match to d1plqa1
        mutant
      2. 2285686Domain d5momb2: 5mom B:127-256 [328987]
        automated match to d1plqa2
        mutant
      3. 2285759Domain d5momc1: 5mom C:1-126 [329060]
        automated match to d1plqa1
        mutant
      4. 2285760Domain d5momc2: 5mom C:127-255 [329061]
        automated match to d1plqa2
        mutant
      5. 2285766Domain d5moma1: 5mom A:1-126 [329067]
        automated match to d1plqa1
        mutant
      6. 2285767Domain d5moma2: 5mom A:127-258 [329068]
        automated match to d1plqa2
        mutant
  7. 2193937Pacific white shrimp (Litopenaeus vannamei) [TaxId:6689] [256684] (1 PDB entry)
  8. 2193944Pseudomonas aeruginosa [TaxId:983919] [259535] (1 PDB entry)
  9. 2193951Sulfolobus solfataricus [TaxId:2287] [225132] (4 PDB entries)
    1. Domains for 2hii:
      1. 2193958Domain d2hiib1: 2hii B:2-127 [204552]
        automated match to d1ud9a1
      2. 2193959Domain d2hiib2: 2hii B:128-244 [204553]
        automated match to d1ud9a2
      3. 2193960Domain d2hiic1: 2hii C:1-126 [204554]
        automated match to d1ud9a1
      4. 2193961Domain d2hiic2: 2hii C:127-243 [204555]
        automated match to d1ud9a2
      5. 2193962Domain d2hiiy1: 2hii Y:2-127 [204556]
        automated match to d1ud9a1
      6. 2193963Domain d2hiiy2: 2hii Y:128-244 [204557]
        automated match to d1ud9a2
      7. 2193964Domain d2hiiz1: 2hii Z:1-126 [204558]
        automated match to d1ud9a1
      8. 2193965Domain d2hiiz2: 2hii Z:127-243 [204559]
        automated match to d1ud9a2
    2. Domains for 2ix2:
      1. 2193954Domain d2ix2b1: 2ix2 B:1-126 [204888]
        automated match to d1ud9a1
      2. 2193955Domain d2ix2b2: 2ix2 B:127-245 [204889]
        automated match to d1ud9a2
      3. 2193956Domain d2ix2c1: 2ix2 C:10-141 [204890]
        automated match to d1ud9a1
      4. 2193957Domain d2ix2c2: 2ix2 C:142-259 [204891]
        automated match to d1ud9a2
    3. Domains for 2izo:
      1. 2193966Domain d2izob1: 2izo B:1-127 [204912]
        automated match to d1ud9a1
        protein/DNA complex; complexed with mg, zn
      2. 2193967Domain d2izob2: 2izo B:128-245 [204913]
        automated match to d1ud9a2
        protein/DNA complex; complexed with mg, zn
    4. Domains for 3fds:
      1. 2193952Domain d3fdsd1: 3fds D:1-127 [209862]
        Other proteins in same PDB: d3fdsa1, d3fdsa2
        automated match to d1ud9a1
        protein/DNA complex; complexed with 1pe, edo, gol, peg, pge
      2. 2193953Domain d3fdsd2: 3fds D:128-245 [209863]
        Other proteins in same PDB: d3fdsa1, d3fdsa2
        automated match to d1ud9a2
        protein/DNA complex; complexed with 1pe, edo, gol, peg, pge
  10. 2193968Sulfolobus solfataricus [TaxId:273057] [225354] (3 PDB entries)
    1. Domains for 2ijx:
      1. 2193969Domain d2ijxa1: 2ijx A:1-126 [204796]
        automated match to d1ud9a1
        complexed with edo
      2. 2193970Domain d2ijxa2: 2ijx A:127-244 [204797]
        automated match to d1ud9a2
        complexed with edo
      3. 2193971Domain d2ijxb1: 2ijx B:1-126 [204798]
        automated match to d1ud9a1
        complexed with edo
      4. 2193972Domain d2ijxb2: 2ijx B:127-244 [204799]
        automated match to d1ud9a2
        complexed with edo
      5. 2193973Domain d2ijxc1: 2ijx C:1-126 [204800]
        automated match to d1ud9a1
        complexed with edo
      6. 2193974Domain d2ijxc2: 2ijx C:127-244 [204801]
        automated match to d1ud9a2
        complexed with edo
      7. 2193975Domain d2ijxd1: 2ijx D:1-126 [204802]
        automated match to d1ud9a1
        complexed with edo
      8. 2193976Domain d2ijxd2: 2ijx D:127-244 [204803]
        automated match to d1ud9a2
        complexed with edo
    2. Domains for 2io4:
      1. 2193989Domain d2io4b1: 2io4 B:1-127 [204830]
        automated match to d1ud9a1
        complexed with ca, mpd
      2. 2193990Domain d2io4b2: 2io4 B:128-246 [204831]
        automated match to d1ud9a2
        complexed with ca, mpd
      3. 2193991Domain d2io4d1: 2io4 D:1-127 [204832]
        automated match to d1ud9a1
        complexed with ca, mpd
      4. 2193992Domain d2io4d2: 2io4 D:128-245 [204833]
        automated match to d1ud9a2
        complexed with ca, mpd
    3. Domains for 2nti:
      1. 2193977Domain d2ntib1: 2nti B:1-127 [205162]
        automated match to d1ud9a1
        complexed with 7pg, br, k
      2. 2193978Domain d2ntib2: 2nti B:128-245 [205163]
        automated match to d1ud9a2
        complexed with 7pg, br, k
      3. 2193979Domain d2ntic1: 2nti C:1-126 [205164]
        automated match to d1ud9a1
        complexed with 7pg, br, k
      4. 2193980Domain d2ntic2: 2nti C:127-244 [205165]
        automated match to d1ud9a2
        complexed with 7pg, br, k
      5. 2193981Domain d2ntie1: 2nti E:1-127 [205166]
        automated match to d1ud9a1
        complexed with 7pg, br, k
      6. 2193982Domain d2ntie2: 2nti E:128-246 [205167]
        automated match to d1ud9a2
        complexed with 7pg, br, k
      7. 2193983Domain d2ntif1: 2nti F:1-126 [205168]
        automated match to d1ud9a1
        complexed with 7pg, br, k
      8. 2193984Domain d2ntif2: 2nti F:127-244 [205169]
        automated match to d1ud9a2
        complexed with 7pg, br, k
      9. 2193985Domain d2ntih1: 2nti H:1-127 [205170]
        automated match to d1ud9a1
        complexed with 7pg, br, k
      10. 2193986Domain d2ntih2: 2nti H:128-246 [205171]
        automated match to d1ud9a2
        complexed with 7pg, br, k
      11. 2193987Domain d2ntii1: 2nti I:1-126 [205172]
        automated match to d1ud9a1
        complexed with 7pg, br, k
      12. 2193988Domain d2ntii2: 2nti I:127-244 [205173]
        automated match to d1ud9a2
        complexed with 7pg, br, k
  11. 2193993Sulfolobus tokodaii [TaxId:273063] [231791] (2 PDB entries)
    1. Domains for 3aix:
      1. 2193994Domain d3aixa1: 3aix A:1-126 [231792]
        automated match to d2hiiy1
        complexed with so4
      2. 2193995Domain d3aixa2: 3aix A:127-245 [231805]
        automated match to d2hiiy2
        complexed with so4
    2. Domains for 3aiz:
      1. 2193996Domain d3aizc1: 3aiz C:1-126 [231793]
        automated match to d2hiiy1
        complexed with so4
      2. 2193997Domain d3aizc2: 3aiz C:127-246 [231803]
        automated match to d2hiiy2
        complexed with so4
      3. 2193998Domain d3aizd1: 3aiz D:1-126 [231794]
        automated match to d2hiiy1
        complexed with so4
      4. 2193999Domain d3aizd2: 3aiz D:127-245 [231804]
        automated match to d2hiiy2
        complexed with so4
  12. 2194000Thermococcus kodakarensis [TaxId:311400] [226061] (2 PDB entries)
    1. Domains for 3lx1:
      1. 2194001Domain d3lx1a1: 3lx1 A:2-122 [265042]
        automated match to d1iz5a1
        complexed with so4
      2. 2194002Domain d3lx1a2: 3lx1 A:123-247 [265043]
        automated match to d1iz4a2
        complexed with so4
    2. Domains for 3lx2:
      1. 2194003Domain d3lx2a1: 3lx2 A:2-117 [213081]
        automated match to d1ge8a1
        complexed with so4
      2. 2194004Domain d3lx2a2: 3lx2 A:118-248 [213082]
        automated match to d1ge8a2
        complexed with so4
      3. 2194005Domain d3lx2b1: 3lx2 B:2-117 [213083]
        automated match to d1ge8a1
        complexed with so4
      4. 2194006Domain d3lx2b2: 3lx2 B:118-247 [213084]
        automated match to d1ge8a2
        complexed with so4
      5. 2194007Domain d3lx2c1: 3lx2 C:2-117 [213085]
        automated match to d1ge8a1
        complexed with so4
      6. 2194008Domain d3lx2c2: 3lx2 C:118-247 [213086]
        automated match to d1ge8a2
        complexed with so4
  13. Leishmania donovani [TaxId:5661] [313997] (1 PDB entry)
  14. 2275982Thermococcus gammatolerans [TaxId:593117] [319283] (1 PDB entry)
  15. 2286840Aspergillus fumigatus [TaxId:1437362] [330141] (1 PDB entry)

More info for Protein automated matches from d.131.1.0: automated matches

Timeline for Protein automated matches from d.131.1.0: automated matches: