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. 2183409Fold d.90: FMN-dependent nitroreductase-like [55468] (1 superfamily)
    core: (alpha-beta-alpha-beta)2; 3 layers a/b/a; antiparallel beta-sheet: 1243
  4. 2183410Superfamily d.90.1: FMN-dependent nitroreductase-like [55469] (3 families) (S)
  5. 2183540Family d.90.1.0: automated matches [191446] (1 protein)
    not a true family
  6. 2183541Protein automated matches [190672] (25 species)
    not a true protein

Species:

  1. 2183542Bacillus subtilis [TaxId:1423] [188288] (2 PDB entries)
    1. Domains for 3bem:
      1. 2183543Domain d3bema1: 3bem A:1-206 [172571]
        Other proteins in same PDB: d3bema2, d3bemb2
        automated match to d2b67a1
        complexed with act, fmn, ni, pgo
      2. 2183544Domain d3bemb1: 3bem B:1-206 [172572]
        Other proteins in same PDB: d3bema2, d3bemb2
        automated match to d2b67a1
        complexed with act, fmn, ni, pgo
    2. Domains for 3n2s:
      1. 2183545Domain d3n2sa_: 3n2s A: [181848]
        automated match to d1bkja_
        complexed with cl, fmn
      2. 2183546Domain d3n2sb_: 3n2s B: [181849]
        automated match to d1bkja_
        complexed with cl, fmn
      3. 2183547Domain d3n2sc_: 3n2s C: [181850]
        automated match to d1bkja_
        complexed with cl, fmn
      4. 2183548Domain d3n2sd_: 3n2s D: [181851]
        automated match to d1bkja_
        complexed with cl, fmn
  2. 2183549Bacteroides fragilis [TaxId:272559] [188633] (1 PDB entry)
  3. 2183552Bacteroides thetaiotaomicron [TaxId:226186] [232733] (1 PDB entry)
  4. 2183554Baker's yeast (Saccharomyces cerevisiae) [TaxId:4932] [271985] (1 PDB entry)
  5. 2183557Bartonella henselae [TaxId:283166] [267839] (1 PDB entry)
  6. 2183560Clostridium acetobutylicum [TaxId:1488] [255806] (1 PDB entry)
  7. 2183563Clostridium difficile [TaxId:272563] [196092] (3 PDB entries)
    1. Domains for 3eo8:
      1. 2183569Domain d3eo8a1: 3eo8 A:1-218 [199349]
        Other proteins in same PDB: d3eo8a2, d3eo8b2, d3eo8c2, d3eo8d2, d3eo8e2, d3eo8f2
        automated match to d3eo8f_
        complexed with act, cl, fmn, gol
      2. 2183570Domain d3eo8b1: 3eo8 B:1-218 [199350]
        Other proteins in same PDB: d3eo8a2, d3eo8b2, d3eo8c2, d3eo8d2, d3eo8e2, d3eo8f2
        automated match to d3eo8f_
        complexed with act, cl, fmn, gol
      3. 2183571Domain d3eo8c1: 3eo8 C:1-218 [199351]
        Other proteins in same PDB: d3eo8a2, d3eo8b2, d3eo8c2, d3eo8d2, d3eo8e2, d3eo8f2
        automated match to d3eo8f_
        complexed with act, cl, fmn, gol
      4. 2183572Domain d3eo8d1: 3eo8 D:1-218 [199352]
        Other proteins in same PDB: d3eo8a2, d3eo8b2, d3eo8c2, d3eo8d2, d3eo8e2, d3eo8f2
        automated match to d3eo8f_
        complexed with act, cl, fmn, gol
      5. 2183573Domain d3eo8e1: 3eo8 E:1-218 [199353]
        Other proteins in same PDB: d3eo8a2, d3eo8b2, d3eo8c2, d3eo8d2, d3eo8e2, d3eo8f2
        automated match to d3eo8f_
        complexed with act, cl, fmn, gol
      6. 2183574Domain d3eo8f1: 3eo8 F:1-218 [196093]
        Other proteins in same PDB: d3eo8a2, d3eo8b2, d3eo8c2, d3eo8d2, d3eo8e2, d3eo8f2
        automated match to d2hayc_
        complexed with act, cl, fmn, gol
    2. Domain for 3h4o:
    3. Domains for 3koq:
      1. 2183565Domain d3koqa1: 3koq A:1-172 [212479]
        Other proteins in same PDB: d3koqa2
        automated match to d2b67a1
        complexed with cl, fmn, gol
      2. 2183566Domain d3koqb_: 3koq B: [212480]
        Other proteins in same PDB: d3koqa2
        automated match to d2b67a1
        complexed with cl, fmn, gol
      3. 2183567Domain d3koqc_: 3koq C: [212481]
        Other proteins in same PDB: d3koqa2
        automated match to d2b67a1
        complexed with cl, fmn, gol
      4. 2183568Domain d3koqd_: 3koq D: [212482]
        Other proteins in same PDB: d3koqa2
        automated match to d2b67a1
        complexed with cl, fmn, gol
  8. 2183575Clostridium novyi [TaxId:386415] [225610] (1 PDB entry)
  9. 2183578Desulfitobacterium hafniense [TaxId:272564] [233297] (1 PDB entry)
  10. 2183583Exiguobacterium sibiricum [TaxId:262543] [188806] (1 PDB entry)
  11. 2183586Geobacter metallireducens [TaxId:269799] [226309] (1 PDB entry)
  12. 2183589Geobacter sulfurreducens [TaxId:243231] [226431] (1 PDB entry)
  13. 2183592Helicobacter pylori [TaxId:210] [187778] (2 PDB entries)
    1. Domain for 2h0u:
    2. Domains for 3qdl:
      1. 2183594Domain d3qdla_: 3qdl A: [215186]
        automated match to d3ge6a_
        complexed with fmn, gol
      2. 2183595Domain d3qdlb_: 3qdl B: [215187]
        automated match to d3ge6a_
        complexed with fmn, gol
      3. 2183596Domain d3qdlc_: 3qdl C: [215188]
        automated match to d3ge6a_
        complexed with fmn, gol
      4. 2183597Domain d3qdld_: 3qdl D: [215189]
        automated match to d3ge6a_
        complexed with fmn, gol
  14. 2183598Idiomarina loihiensis [TaxId:135577] [189444] (1 PDB entry)
  15. 2183602Lactobacillus plantarum [TaxId:1590] [269281] (2 PDB entries)
    1. Domains for 4qlx:
      1. 2183603Domain d4qlxa_: 4qlx A: [269288]
        automated match to d3gbha_
        complexed with cl, fmn, ktc
      2. 2183604Domain d4qlxb_: 4qlx B: [269287]
        automated match to d3gbha_
        complexed with cl, fmn, ktc
    2. Domains for 4qly:
      1. 2183605Domain d4qlya_: 4qly A: [269284]
        automated match to d3gbha_
        complexed with fmn
      2. 2183606Domain d4qlyb_: 4qly B: [269283]
        automated match to d3gbha_
        complexed with fmn
      3. 2183607Domain d4qlyc_: 4qly C: [269286]
        automated match to d3gbha_
        complexed with fmn
      4. 2183608Domain d4qlyd_: 4qly D: [269282]
        automated match to d3gbha_
        complexed with fmn
  16. 2183609Lactococcus lactis [TaxId:1358] [189386] (6 PDB entries)
    1. Domain for 2wqf:
    2. Domain for 4bn6:
    3. Domain for 4bn7:
    4. Domain for 4bn8:
    5. Domain for 4bn9:
    6. Domain for 4bnb:
  17. 2183616Mycobacterium smegmatis [TaxId:246196] [311252] (2 PDB entries)
    1. Domains for 2wzv:
      1. 2183619Domain d2wzva_: 2wzv A: [304617]
        automated match to d3gr3a_
        complexed with fmn, gol, po4
      2. 2183620Domain d2wzvb_: 2wzv B: [304618]
        automated match to d3gr3a_
        complexed with fmn, gol, po4
    2. Domains for 2wzw:
      1. 2183617Domain d2wzwa_: 2wzw A: [304619]
        automated match to d3gr3a_
        complexed with fmn, ndp, po4
      2. 2183618Domain d2wzwb_: 2wzw B: [304620]
        automated match to d3gr3a_
        complexed with fmn, ndp, po4
  18. 2183621Parabacteroides distasonis [TaxId:435591] [232883] (1 PDB entry)
  19. 2183624Porphyromonas gingivalis [TaxId:242619] [232279] (1 PDB entry)
  20. 2183627Staphylococcus epidermidis [TaxId:176280] [188805] (1 PDB entry)
  21. 2183632Streptococcus mutans [TaxId:1309] [188802] (1 PDB entry)
  22. 2183637Streptococcus pyogenes [TaxId:301447] [187797] (1 PDB entry)
  23. 2271339Bacillus megaterium [TaxId:1404] [314644] (1 PDB entry)
  24. 2279695Peptoclostridium difficile [TaxId:645463] [322996] (1 PDB entry)
  25. 2287201Vibrio parahaemolyticus [TaxId:223926] [330502] (1 PDB entry)

More info for Protein automated matches from d.90.1.0: automated matches

Timeline for Protein automated matches from d.90.1.0: automated matches: