SCOPe 2.07: Family a.3.1.1: monodomain cytochrome c

Lineage for Family a.3.1.1: monodomain cytochrome c

1. Root: SCOPe 2.07

2. Class a: All alpha proteins [46456] (289 folds)

3. Fold a.3: Cytochrome c [46625] (1 superfamily)
   core: 3 helices; folded leaf, opened

4. Superfamily a.3.1: Cytochrome c [46626] (9 families)
   covalently-bound heme completes the core

5. Family a.3.1.1: monodomain cytochrome c [46627] (16 proteins)

Proteins:

1. Cytochrome c'' [68950] (1 species)
   close homologue of SHP

   • Species Methylophilus methylotrophus, strain w3a1 [TaxId:17] [68951] (3 PDB entries)

2. Cytochrome c-L (MoxG) [109645] (1 species)

   • Species Methylobacterium extorquens [TaxId:408] [109646] (1 PDB entry)
     Uniprot P14774 49-197

3. Cytochrome c2 [46650] (8 species)

   1. Species Paracoccus denitrificans [TaxId:266] [46657] (2 PDB entries)

   2. Species Rhodobacter capsulatus [TaxId:1061] [46652] (3 PDB entries)
      Uniprot P00094

   3. Species Rhodobacter sphaeroides [TaxId:1063] [46653] (5 PDB entries)

   4. Species Rhodopila globiformis [TaxId:1071] [46656] (1 PDB entry)

   5. Species Rhodopseudomonas palustris [TaxId:1076] [46655] (4 PDB entries)

   6. Species Rhodopseudomonas viridis [TaxId:1079] [46654] (3 PDB entries)

   7. Species Rhodospirillum centenum [TaxId:34018] [68947] (1 PDB entry)

   8. Species Rhodospirillum rubrum [TaxId:1085] [46651] (2 PDB entries)

4. Cytochrome c5 [46658] (1 species)

   • Species Azotobacter vinelandii [TaxId:354] [46659] (1 PDB entry)

5. Cytochrome c550 [100991] (3 species)

   1. Species Thermosynechococcus elongatus [TaxId:146786] [100992] (1 PDB entry)

   2. Species Thermosynechococcus elongatus [TaxId:197221] [338583] (2 PDB entries)

   3. Species Thermosynechococcus vulcanus [TaxId:32053] [259629] (18 PDB entries)

6. Cytochrome c551 [46660] (5 species)

   1. Species Methylophilus methylotrophus, strain w3a1 [TaxId:17] [46664] (1 PDB entry)

   2. Species Paracoccus denitrificans [TaxId:266] [46663] (5 PDB entries)

   3. Species Pseudomonas aeruginosa [TaxId:287] [46662] (4 PDB entries)

   4. Species Pseudomonas aeruginosa, PA01 [TaxId:208964] [271783] (3 PDB entries)

   5. Species Pseudomonas stutzeri [TaxId:316] [46661] (3 PDB entries)

7. Cytochrome c552 [46636] (6 species)

   1. Species Hydrogenobacter thermophilus [TaxId:940] [46640] (9 PDB entries)

   2. Species Nitrosomonas europaea [TaxId:228410] [224843] (1 PDB entry)

   3. Species Nitrosomonas europaea [TaxId:915] [46641] (3 PDB entries)

   4. Species Paracoccus denitrificans [TaxId:266] [46639] (5 PDB entries)

   5. Species Pseudomonas nautica [TaxId:2743] [46638] (1 PDB entry)

   6. Species Thermus thermophilus [TaxId:274] [46637] (7 PDB entries)
      Uniprot P04164

8. Cytochrome c6 (synonym: cytochrome c553) [46628] (11 species)

   1. Species Arthrospira maxima [TaxId:129910] [63457] (2 PDB entries)

   2. Species Bacillus pasteurii [TaxId:1474] [46629] (5 PDB entries)

   3. Species Desulfovibrio desulfuricans [TaxId:876] [46632] (1 PDB entry)

   4. Species Desulfovibrio vulgaris, different strains [TaxId:881] [46631] (2 PDB entries)

   5. Species Green alga (Chlamydomonas reinhardtii) [TaxId:3055] [46633] (2 PDB entries)

   6. Species Green alga (Cladophora glomerata) [TaxId:162068] [81674] (1 PDB entry)

   7. Species Green alga (Scenedesmus obliquus) [TaxId:3088] [46635] (2 PDB entries)

   8. Species Monoraphidium braunii [TaxId:34112] [46630] (3 PDB entries)

   9. Species Red alga (Porphyra yezoensis) [TaxId:2788] [63458] (1 PDB entry)

   10. Species Synechococcus elongatus [TaxId:32046] [46634] (1 PDB entry)

   11. Species Thermosynechococcus elongatus [TaxId:197221] [379125] (1 PDB entry)

9. Cytochrome ch [46648] (1 species)

   • Species Methylobacterium extorquens [TaxId:408] [46649] (1 PDB entry)

10. Mitochondrial cytochrome c [46642] (7 species)

    1. Species Ateles sp. [TaxId:9511] [313555] (1 PDB entry)

    2. Species Baker's yeast (Saccharomyces cerevisiae) [TaxId:4932] [46643] (90 PDB entries)
       Uniprot P00044

    3. Species Bluefin tuna (Thunnus thynnus) [TaxId:8237] [46646] (5 PDB entries)
       identical sequence to Thunnus alalunga, TaxId: 8235

    4. Species Bonito (Katsuwonus pelamis) [TaxId:8226] [46647] (1 PDB entry)

    5. Species Horse (Equus caballus) [TaxId:9796] [46644] (29 PDB entries)
       Uniprot P00004

    6. Species Human (Homo sapiens) [TaxId:9606] [109644] (12 PDB entries)
       Uniprot P99999

    7. Species Rice embryos (Oryza sativa) [TaxId:4530] [46645] (1 PDB entry)

11. Mono-heme c-type cytochrome ScyA [68948] (1 species)

    • Species Shewanella putrefaciens [TaxId:24] [68949] (2 PDB entries)

12. Mono-heme c-type cytochrome SoxX [81675] (1 species)

    • Species Rhodovulum sulfidophilum [TaxId:35806] [81676] (4 PDB entries)

13. p-Cresol methylhydroxylase, cytochrome c subunit [46669] (1 species)
    the other subunit is a flavoprotein

    • Species Pseudomonas putida [TaxId:303] [46670] (2 PDB entries)

14. Photosystem II associated cytochrome c549 [63459] (2 species)

    1. Species Arthrospira maxima [TaxId:129910] [63461] (1 PDB entry)

    2. Species Synechocystis sp. PCC 6803 [TaxId:1148] [63460] (1 PDB entry)

15. SHP, an oxygen binding cytochrome c [46667] (1 species)

    • Species Rhodobacter sphaeroides [TaxId:1063] [46668] (4 PDB entries)

16. automated matches [190113] (17 species)
    not a true protein

    1. Species Cow (Bos taurus) [TaxId:9913] [187444] (2 PDB entries)

    2. Species Crithidia fasciculata [TaxId:5656] [189994] (2 PDB entries)

    3. Species Hizikia fusiformis [TaxId:74103] [188620] (1 PDB entry)

    4. Species Leishmania major [TaxId:5664] [194459] (2 PDB entries)

    5. Species Mouse (Mus musculus) [TaxId:10090] [187404] (1 PDB entry)

    6. Species Norway rat (Rattus norvegicus) [TaxId:10116] [322473] (5 PDB entries)

    7. Species Paracoccus versutus [TaxId:34007] [187457] (3 PDB entries)

    8. Species Phaeodactylum tricornutum [TaxId:2850] [188813] (1 PDB entry)

    9. Species Phormidium laminosum [TaxId:32059] [187369] (2 PDB entries)

    10. Species Pichia membranifaciens [TaxId:4926] [349958] (1 PDB entry)

    11. Species Pseudomonas aeruginosa [TaxId:287] [187678] (1 PDB entry)

    12. Species Pseudomonas putida [TaxId:303] [186836] (1 PDB entry)

    13. Species Pseudomonas sp. [TaxId:306] [390586] (1 PDB entry)

    14. Species Pseudomonas stutzeri [TaxId:96564] [255233] (1 PDB entry)

    15. Species Thermosynechococcus elongatus [TaxId:197221] [260557] (2 PDB entries)

    16. Species Thermosynechococcus elongatus [TaxId:32046] [188751] (3 PDB entries)

    17. Species Thermosynechococcus vulcanus [TaxId:32053] [189921] (1 PDB entry)

More info for Family a.3.1.1: monodomain cytochrome c

Timeline for Family a.3.1.1: monodomain cytochrome c:

• Family a.3.1.1: monodomain cytochrome c first appeared (with stable ids) in SCOP 1.55
  
• Family a.3.1.1: monodomain cytochrome c appears in SCOPe 2.06
  
• Family a.3.1.1: monodomain cytochrome c appears in the current release, SCOPe 2.08