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. 1976409Class a: All alpha proteins [46456] (289 folds)
  3. 1981147Fold a.4: DNA/RNA-binding 3-helical bundle [46688] (14 superfamilies)
    core: 3-helices; bundle, closed or partly opened, right-handed twist; up-and down
  4. 1984099Superfamily a.4.6: C-terminal effector domain of the bipartite response regulators [46894] (4 families) (S)
    binds to DNA and RNA polymerase; the N-terminal, receiver domain belongs to the CheY family
  5. 1984185Family a.4.6.0: automated matches [191513] (1 protein)
    not a true family
  6. 1984186Protein automated matches [190858] (17 species)
    not a true protein

Species:

  1. 1984187Bacillus subtilis [TaxId:1423] [225130] (3 PDB entries)
    1. Domain for 2d1v:
    2. Domains for 2krf:
      1. 1984190Domain d2krfa_: 2krf A: [264359]
        automated match to d2rnja_
      2. 1984191Domain d2krfb_: 2krf B: [264360]
        automated match to d2rnja_
    3. Domain for 3ulq:
  2. 1984192Deinococcus radiodurans [TaxId:1299] [226279] (2 PDB entries)
    1. Domain for 3q9s:
    2. Domains for 3q9v:
      1. 1984193Domain d3q9va_: 3q9v A: [248810]
        automated match to d2pmub_
      2. 1984194Domain d3q9vb_: 3q9v B: [248811]
        automated match to d2pmub_
  3. 1984196Enterococcus faecalis [TaxId:226185] [230777] (1 PDB entry)
  4. 1984198Escherichia coli K-12 [TaxId:83333] [226337] (1 PDB entry)
  5. 1984200Helicobacter pylori [TaxId:85963] [255221] (3 PDB entries)
    1. Domain for 2hqn:
    2. Domains for 2hqr:
      1. 1984202Domain d2hqra2: 2hqr A:118-223 [242057]
        Other proteins in same PDB: d2hqra1, d2hqrb1
        automated match to d1kgsa1
      2. 1984203Domain d2hqrb2: 2hqr B:118-223 [242059]
        Other proteins in same PDB: d2hqra1, d2hqrb1
        automated match to d1kgsa1
    3. Domain for 2k4j:
  6. 1984205Klebsiella pneumoniae [TaxId:1185418] [255488] (1 PDB entry)
  7. 1984207Klebsiella pneumoniae [TaxId:573] [255310] (3 PDB entries)
    1. Domain for 2jzy:
    2. Domain for 2mlk:
    3. Domains for 4nhj:
      1. 1984208Domain d4nhja_: 4nhj A: [257989]
        automated match to d3zq7a_
        protein/DNA complex
      2. 1984209Domain d4nhjb_: 4nhj B: [257990]
        automated match to d3zq7a_
        protein/DNA complex
  8. 1984212Mycobacterium tuberculosis [TaxId:1773] [188191] (3 PDB entries)
    1. Domains for 1zlj:
      1. 1984215Domain d1zlja_: 1zlj A: [162519]
        Other proteins in same PDB: d1zljb2, d1zljf2
        automated match to d1fsea_
      2. 1984216Domain d1zljb1: 1zlj B:144-209 [162520]
        Other proteins in same PDB: d1zljb2, d1zljf2
        automated match to d1fsea_
      3. 1984217Domain d1zljc_: 1zlj C: [162521]
        Other proteins in same PDB: d1zljb2, d1zljf2
        automated match to d1fsea_
      4. 1984218Domain d1zljd_: 1zlj D: [162522]
        Other proteins in same PDB: d1zljb2, d1zljf2
        automated match to d1fsea_
      5. 1984219Domain d1zlje_: 1zlj E: [162523]
        Other proteins in same PDB: d1zljb2, d1zljf2
        automated match to d1fsea_
      6. 1984220Domain d1zljf1: 1zlj F:144-209 [162524]
        Other proteins in same PDB: d1zljb2, d1zljf2
        automated match to d1fsea_
      7. 1984221Domain d1zljg_: 1zlj G: [162525]
        Other proteins in same PDB: d1zljb2, d1zljf2
        automated match to d1fsea_
      8. 1984222Domain d1zljh_: 1zlj H: [162526]
        Other proteins in same PDB: d1zljb2, d1zljf2
        automated match to d1fsea_
    2. Domains for 1zlk:
      1. 1984223Domain d1zlka_: 1zlk A: [241141]
        automated match to d1zljb_
        protein/DNA complex
      2. 1984224Domain d1zlkb_: 1zlk B: [241142]
        automated match to d1zljb_
        protein/DNA complex
    3. Domains for 3c57:
      1. 1984213Domain d3c57a_: 3c57 A: [199160]
        automated match to d3c57b_
      2. 1984214Domain d3c57b_: 3c57 B: [195256]
        automated match to d1zljb_
  9. 1984225Mycobacterium tuberculosis [TaxId:83332] [225356] (2 PDB entries)
    1. Domain for 2oqr:
    2. Domains for 2pmu:
      1. 1984226Domain d2pmua_: 2pmu A: [205543]
        automated match to d1gxpb_
        complexed with cl, gly, k, po4, unx
      2. 1984227Domain d2pmub_: 2pmu B: [205544]
        automated match to d1gxpb_
        complexed with cl, gly, k, po4, unx
      3. 1984228Domain d2pmuc_: 2pmu C: [205545]
        automated match to d1gxpb_
        complexed with cl, gly, k, po4, unx
      4. 1984229Domain d2pmud_: 2pmu D: [205546]
        automated match to d1gxpb_
        complexed with cl, gly, k, po4, unx
      5. 1984230Domain d2pmue_: 2pmu E: [205547]
        automated match to d1gxpb_
        complexed with cl, gly, k, po4, unx
      6. 1984231Domain d2pmuf_: 2pmu F: [205548]
        automated match to d1gxpb_
        complexed with cl, gly, k, po4, unx
  10. 1984233Salmonella typhimurium [TaxId:602] [267786] (1 PDB entry)
  11. 1984235Staphylococcus aureus [TaxId:1280] [225593] (4 PDB entries)
    1. Domain for 2rnj:
    2. Domains for 2z9m:
      1. 1984238Domain d2z9ma_: 2z9m A: [304800]
        automated match to d2d1va_
      2. 1984239Domain d2z9mb_: 2z9m B: [304801]
        automated match to d2d1va_
    3. Domains for 2zxj:
      1. 1984236Domain d2zxja_: 2zxj A: [207996]
        automated match to d1gxqa_
      2. 1984237Domain d2zxjb_: 2zxj B: [207997]
        automated match to d1gxqa_
    4. Domains for 4qwq:
      1. 1984240Domain d4qwqa_: 4qwq A: [276149]
        automated match to d4ixaa_
      2. 1984241Domain d4qwqb_: 4qwq B: [276251]
        automated match to d4ixaa_
  12. 1984243Staphylococcus aureus [TaxId:1458279] [275992] (1 PDB entry)
  13. 1984246Staphylococcus epidermidis [TaxId:176280] [236417] (1 PDB entry)
  14. 1984249Streptococcus pyogenes [TaxId:1314] [226362] (1 PDB entry)
  15. 2272175Escherichia coli [TaxId:83333] [315476] (1 PDB entry)
  16. 2276012Streptococcus agalactiae [TaxId:1311] [319313] (1 PDB entry)
  17. 2285378Acinetobacter baumannii [TaxId:575584] [328679] (1 PDB entry)

More info for Protein automated matches from a.4.6.0: automated matches

Timeline for Protein automated matches from a.4.6.0: automated matches: