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. 1980368Fold a.3: Cytochrome c [46625] (1 superfamily)
    core: 3 helices; folded leaf, opened
  4. 1980369Superfamily a.3.1: Cytochrome c [46626] (9 families) (S)
    covalently-bound heme completes the core
  5. 1981026Family a.3.1.0: automated matches [191374] (1 protein)
    not a true family
  6. 1981027Protein automated matches [190453] (22 species)
    not a true protein

Species:

  1. 1981028Achromobacter xylosoxidans [TaxId:85698] [188921] (1 PDB entry)
  2. 1981030Aquifex aeolicus [TaxId:224324] [268117] (1 PDB entry)
  3. 1981035Aquifex aeolicus [TaxId:63363] [189042] (1 PDB entry)
  4. 1981037Chlorobium tepidum [TaxId:194439] [228039] (1 PDB entry)
  5. 1981040Geobacter sulfurreducens [TaxId:243231] [226497] (4 PDB entries)
    1. Domains for 4aal:
      1. 1981043Domain d4aala1: 4aal A:23-188 [218750]
        automated match to d1nmla1
        complexed with act, ca, eoh, hec, po4
      2. 1981044Domain d4aala2: 4aal A:189-346 [218751]
        automated match to d1nmla2
        complexed with act, ca, eoh, hec, po4
      3. 1981045Domain d4aalb1: 4aal B:23-188 [218752]
        automated match to d1nmla1
        complexed with act, ca, eoh, hec, po4
      4. 1981046Domain d4aalb2: 4aal B:189-346 [218753]
        automated match to d1nmla2
        complexed with act, ca, eoh, hec, po4
    2. Domains for 4aam:
      1. 1981047Domain d4aama1: 4aam A:23-188 [218754]
        automated match to d1nmla1
        complexed with ca, hec, so4
      2. 1981048Domain d4aama2: 4aam A:189-346 [218755]
        automated match to d1nmla2
        complexed with ca, hec, so4
    3. Domains for 4aan:
      1. 1981041Domain d4aana1: 4aan A:24-188 [218756]
        automated match to d1nmla1
        complexed with bu3, ca, hec
      2. 1981042Domain d4aana2: 4aan A:189-346 [218757]
        automated match to d1nmla2
        complexed with bu3, ca, hec
    4. Domains for 4aao:
      1. 1981049Domain d4aaoa1: 4aao A:23-188 [218758]
        automated match to d1nmla1
        complexed with ca, hec, so4
      2. 1981050Domain d4aaoa2: 4aao A:189-346 [218759]
        automated match to d1nmla2
        complexed with ca, hec, so4
      3. 1981051Domain d4aaob1: 4aao B:23-188 [218760]
        automated match to d1nmla1
        complexed with ca, hec, so4
      4. 1981052Domain d4aaob2: 4aao B:189-345 [218761]
        automated match to d1nmla2
        complexed with ca, hec, so4
  6. 1981053Geobacter sulfurreducens [TaxId:35554] [188580] (6 PDB entries)
    1. Domain for 3cu4:
    2. Domain for 3dp5:
    3. Domains for 3hq6:
      1. 1981060Domain d3hq6a1: 3hq6 A:22-188 [211210]
        automated match to d1nmla1
        complexed with ca, hem
      2. 1981061Domain d3hq6a2: 3hq6 A:189-345 [211211]
        automated match to d1nmla2
        complexed with ca, hem
      3. 1981062Domain d3hq6b1: 3hq6 B:22-188 [211212]
        automated match to d1nmla1
        complexed with ca, hem
      4. 1981063Domain d3hq6b2: 3hq6 B:189-345 [211213]
        automated match to d1nmla2
        complexed with ca, hem
    4. Domains for 3hq7:
      1. 1981064Domain d3hq7a1: 3hq7 A:20-188 [211214]
        automated match to d1nmla1
        complexed with ca, hem
      2. 1981065Domain d3hq7a2: 3hq7 A:189-345 [211215]
        automated match to d1nmla2
        complexed with ca, hem
    5. Domains for 3hq8:
      1. 1981066Domain d3hq8a1: 3hq8 A:22-188 [211216]
        automated match to d1nmla1
        complexed with ca, hem, imd
      2. 1981067Domain d3hq8a2: 3hq8 A:189-345 [211217]
        automated match to d1nmla2
        complexed with ca, hem, imd
      3. 1981068Domain d3hq8b1: 3hq8 B:22-188 [211218]
        automated match to d1nmla1
        complexed with ca, hem, imd
      4. 1981069Domain d3hq8b2: 3hq8 B:189-345 [211219]
        automated match to d1nmla2
        complexed with ca, hem, imd
    6. Domains for 3hq9:
      1. 1981055Domain d3hq9a1: 3hq9 A:22-188 [211220]
        automated match to d1nmla1
        complexed with bu3, ca, hem, imd, oxl
      2. 1981056Domain d3hq9a2: 3hq9 A:189-345 [211221]
        automated match to d1nmla2
        complexed with bu3, ca, hem, imd, oxl
      3. 1981057Domain d3hq9b1: 3hq9 B:21-188 [211222]
        automated match to d1nmla1
        complexed with bu3, ca, hem, imd, oxl
      4. 1981058Domain d3hq9b2: 3hq9 B:189-345 [211223]
        automated match to d1nmla2
        complexed with bu3, ca, hem, imd, oxl
  7. 1981070Hydrogenophilus thermoluteolus [TaxId:297] [187588] (1 PDB entry)
  8. 1981072Hyphomicrobium denitrificans [TaxId:53399] [187593] (1 PDB entry)
  9. 1981075Methylobacterium extorquens [311180] (1 PDB entry)
  10. 1981077Nitrosomonas europaea [TaxId:915] [224844] (2 PDB entries)
    1. Domains for 3zox:
      1. 1981082Domain d3zoxa_: 3zox A: [218383]
        automated match to d1ynrb_
        complexed with hec; mutant
      2. 1981083Domain d3zoxb_: 3zox B: [218384]
        automated match to d1ynrb_
        complexed with hec; mutant
      3. 1981084Domain d3zoxc_: 3zox C: [218385]
        automated match to d1ynrb_
        complexed with hec; mutant
      4. 1981085Domain d3zoxd_: 3zox D: [218386]
        automated match to d1ynrb_
        complexed with hec; mutant
    2. Domains for 3zoy:
      1. 1981078Domain d3zoya_: 3zoy A: [218387]
        automated match to d1ynrb_
        complexed with hec; mutant
      2. 1981079Domain d3zoyb_: 3zoy B: [218388]
        automated match to d1ynrb_
        complexed with hec; mutant
      3. 1981080Domain d3zoyc_: 3zoy C: [218389]
        automated match to d1ynrb_
        complexed with hec; mutant
      4. 1981081Domain d3zoyd_: 3zoy D: [218390]
        automated match to d1ynrb_
        complexed with hec; mutant
  11. 1981086Paracoccus denitrificans [TaxId:266] [225029] (1 PDB entry)
  12. 1981095Paracoccus pantotrophus [TaxId:82367] [187503] (3 PDB entries)
    1. Domains for 2c1d:
      1. 1981100Domain d2c1db_: 2c1d B: [163223]
        automated match to d1h31b_
        complexed with hec, zn
      2. 1981101Domain d2c1dd_: 2c1d D: [163224]
        automated match to d1h31b_
        complexed with hec, zn
      3. 1981102Domain d2c1df_: 2c1d F: [163225]
        automated match to d1h31b_
        complexed with hec, zn
      4. 1981103Domain d2c1dh_: 2c1d H: [163226]
        automated match to d1h31b_
        complexed with hec, zn
    2. Domains for 2c1u:
      1. 1981104Domain d2c1ua1: 2c1u A:4-180 [203691]
        automated match to d1nmla1
        complexed with ca, hec
      2. 1981105Domain d2c1ua2: 2c1u A:181-338 [203692]
        automated match to d1nmla2
        complexed with ca, hec
      3. 1981106Domain d2c1ub1: 2c1u B:4-180 [203693]
        automated match to d1nmla1
        complexed with ca, hec
      4. 1981107Domain d2c1ub2: 2c1u B:181-338 [203694]
        automated match to d1nmla2
        complexed with ca, hec
      5. 1981108Domain d2c1uc1: 2c1u C:4-180 [203695]
        automated match to d1nmla1
        complexed with ca, hec
      6. 1981109Domain d2c1uc2: 2c1u C:181-338 [203696]
        automated match to d1nmla2
        complexed with ca, hec
      7. 1981110Domain d2c1ud1: 2c1u D:4-180 [203697]
        automated match to d1nmla1
        complexed with ca, hec
      8. 1981111Domain d2c1ud2: 2c1u D:181-338 [203698]
        automated match to d1nmla2
        complexed with ca, hec
    3. Domains for 2c1v:
      1. 1981096Domain d2c1va1: 2c1v A:4-180 [203699]
        automated match to d1nmla1
        complexed with ca, edo, hec
      2. 1981097Domain d2c1va2: 2c1v A:181-338 [203700]
        automated match to d1nmla2
        complexed with ca, edo, hec
      3. 1981098Domain d2c1vb1: 2c1v B:4-180 [203701]
        automated match to d1nmla1
        complexed with ca, edo, hec
      4. 1981099Domain d2c1vb2: 2c1v B:181-338 [203702]
        automated match to d1nmla2
        complexed with ca, edo, hec
  13. 1981112Rhodobacter capsulatus [TaxId:1061] [225039] (1 PDB entry)
  14. 1981121Rhodothermus marinus [TaxId:29549] [193856] (1 PDB entry)
  15. 1981123Shewanella oneidensis [TaxId:70863] [226180] (1 PDB entry)
  16. 1981132Sideroxydans lithotrophicus [TaxId:580332] [271583] (1 PDB entry)
  17. 1981134Synechococcus sp. [TaxId:32049] [196764] (2 PDB entries)
    1. Domain for 4eie:
    2. Domain for 4eif:
  18. 1981137Synechococcus sp. [TaxId:84588] [237969] (1 PDB entry)
  19. 1981139Thale cress (Arabidopsis thaliana) [TaxId:3702] [187367] (4 PDB entries)
    1. Domain for 2ce0:
    2. Domain for 2ce1:
    3. Domains for 2dge:
      1. 1981142Domain d2dgea_: 2dge A: [163627]
        automated match to d1c6sa_
        complexed with hem, zn
      2. 1981143Domain d2dgeb_: 2dge B: [163628]
        automated match to d1c6sa_
        complexed with hem, zn
      3. 1981144Domain d2dgec_: 2dge C: [163629]
        automated match to d1c6sa_
        complexed with hem, zn
      4. 1981145Domain d2dged_: 2dge D: [163630]
        automated match to d1c6sa_
        complexed with hem, zn
    4. Domain for 2v07:
  20. 2280847Shewanella violacea [TaxId:60217] [324148] (1 PDB entry)
  21. 2284404Thermosynechococcus elongatus [TaxId:197221] [327705] (3 PDB entries)
    1. Domain for 5kaf:
    2. Domain for 5kai:
    3. Domain for 5tis:
  22. 2286104Thermosynechococcus vulcanus [TaxId:32053] [329405] (2 PDB entries)
    1. Domain for 5b5e:
    2. Domain for 5b66:

More info for Protein automated matches from a.3.1.0: automated matches

Timeline for Protein automated matches from a.3.1.0: automated matches: