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. 2078559Class c: Alpha and beta proteins (a/b) [51349] (148 folds)
  3. 2078560Fold c.1: TIM beta/alpha-barrel [51350] (33 superfamilies)
    contains parallel beta-sheet barrel, closed; n=8, S=8; strand order 12345678
    the first seven superfamilies have similar phosphate-binding sites
  4. 2078561Superfamily c.1.1: Triosephosphate isomerase (TIM) [51351] (2 families) (S)
  5. 2078925Family c.1.1.0: automated matches [191424] (1 protein)
    not a true family
  6. 2078926Protein automated matches [190605] (21 species)
    not a true protein

Species:

  1. 2078927Bartonella henselae [TaxId:38323] [225801] (1 PDB entry)
  2. 2078930Brucella melitensis [TaxId:546272] [229966] (1 PDB entry)
  3. 2078935Burkholderia thailandensis [TaxId:271848] [226422] (1 PDB entry)
  4. 2078940Clostridium perfringens [TaxId:195102] [275078] (1 PDB entry)
  5. 2078942Cryptosporidium parvum [TaxId:353152] [225799] (1 PDB entry)
  6. 2078945Deinococcus radiodurans [TaxId:243230] [275090] (1 PDB entry)
  7. 2078950Escherichia coli [TaxId:316385] [226569] (1 PDB entry)
  8. 2078953Giardia intestinalis [TaxId:5741] [187625] (8 PDB entries)
    1. Domain for 2dp3:
    2. Domain for 2yc6:
    3. Domain for 2yc7:
    4. Domains for 2yc8:
      1. 2078980Domain d2yc8a_: 2yc8 A: [304712]
        automated match to d4bi5f_
        mutant
      2. 2078981Domain d2yc8b_: 2yc8 B: [304713]
        automated match to d4bi5f_
        mutant
      3. 2078982Domain d2yc8c_: 2yc8 C: [304714]
        automated match to d4bi5f_
        mutant
      4. 2078983Domain d2yc8d_: 2yc8 D: [304715]
        automated match to d4bi5f_
        mutant
      5. 2078984Domain d2yc8e_: 2yc8 E: [304716]
        automated match to d4bi5f_
        mutant
      6. 2078985Domain d2yc8f_: 2yc8 F: [304717]
        automated match to d4bi5f_
        mutant
      7. 2078986Domain d2yc8g_: 2yc8 G: [304718]
        automated match to d4bi5f_
        mutant
      8. 2078987Domain d2yc8h_: 2yc8 H: [304719]
        automated match to d4bi5f_
        mutant
      9. 2078988Domain d2yc8i_: 2yc8 I: [304720]
        automated match to d4bi5f_
        mutant
      10. 2078989Domain d2yc8j_: 2yc8 J: [304721]
        automated match to d4bi5f_
        mutant
      11. 2078990Domain d2yc8k_: 2yc8 K: [304722]
        automated match to d4bi5f_
        mutant
      12. 2078991Domain d2yc8l_: 2yc8 L: [304723]
        automated match to d4bi5f_
        mutant
      13. 2078992Domain d2yc8m_: 2yc8 M: [304724]
        automated match to d4bi5f_
        mutant
      14. 2078993Domain d2yc8n_: 2yc8 N: [304725]
        automated match to d4bi5f_
        mutant
      15. 2078994Domain d2yc8o_: 2yc8 O: [304726]
        automated match to d4bi5f_
        mutant
      16. 2078995Domain d2yc8p_: 2yc8 P: [304727]
        automated match to d4bi5f_
        mutant
      17. 2078996Domain d2yc8q_: 2yc8 Q: [304728]
        automated match to d4bi5f_
        mutant
      18. 2078997Domain d2yc8r_: 2yc8 R: [304729]
        automated match to d4bi5f_
        mutant
      19. 2078998Domain d2yc8s_: 2yc8 S: [304730]
        automated match to d4bi5f_
        mutant
      20. 2078999Domain d2yc8t_: 2yc8 T: [304731]
        automated match to d4bi5f_
        mutant
    5. Domain for 3pf3:
    6. Domains for 4bi5:
      1. 2078960Domain d4bi5a_: 4bi5 A: [197226]
        automated match to d2yc8r_
        mutant
      2. 2078961Domain d4bi5b_: 4bi5 B: [197227]
        automated match to d2yc8r_
        mutant
      3. 2078962Domain d4bi5c_: 4bi5 C: [197228]
        automated match to d2yc8r_
        mutant
      4. 2078963Domain d4bi5d_: 4bi5 D: [197229]
        automated match to d2yc8r_
        mutant
      5. 2078964Domain d4bi5e_: 4bi5 E: [197230]
        automated match to d2yc8r_
        mutant
      6. 2078965Domain d4bi5f_: 4bi5 F: [201625]
        mutant
      7. 2078966Domain d4bi5g_: 4bi5 G: [201626]
        mutant
      8. 2078967Domain d4bi5h_: 4bi5 H: [201627]
        mutant
      9. 2078968Domain d4bi5i_: 4bi5 I: [201628]
        mutant
      10. 2078969Domain d4bi5j_: 4bi5 J: [201629]
        mutant
      11. 2078970Domain d4bi5k_: 4bi5 K: [201630]
        mutant
      12. 2078971Domain d4bi5l_: 4bi5 L: [201631]
        mutant
      13. 2078972Domain d4bi5m_: 4bi5 M: [201632]
        mutant
      14. 2078973Domain d4bi5n_: 4bi5 N: [201633]
        mutant
      15. 2078974Domain d4bi5o_: 4bi5 O: [201634]
        mutant
      16. 2078975Domain d4bi5p_: 4bi5 P: [201635]
        mutant
      17. 2078976Domain d4bi5q_: 4bi5 Q: [201636]
        mutant
      18. 2078977Domain d4bi5r_: 4bi5 R: [201637]
        mutant
      19. 2078978Domain d4bi5s_: 4bi5 S: [201638]
        mutant
      20. 2078979Domain d4bi5t_: 4bi5 T: [201639]
        mutant
    7. Domain for 4bi6:
    8. Domain for 4bi7:
  9. 2079000Green alga (Chlamydomonas reinhardtii) [TaxId:3055] [230267] (1 PDB entry)
  10. 2079002Helicobacter pylori [TaxId:85962] [225412] (1 PDB entry)
  11. 2079005Leishmania sp. [TaxId:438838] [227847] (1 PDB entry)
  12. 2079008Mycobacterium tuberculosis [TaxId:1773] [225650] (1 PDB entry)
  13. 2079011Mycobacterium tuberculosis [TaxId:83332] [189828] (2 PDB entries)
    1. Domains for 3ta6:
      1. 2079012Domain d3ta6a_: 3ta6 A: [185739]
        automated match to d1b9bb_
        complexed with flc
      2. 2079013Domain d3ta6b_: 3ta6 B: [185740]
        automated match to d1b9bb_
        complexed with flc
    2. Domains for 3tao:
      1. 2079014Domain d3taoa_: 3tao A: [185742]
        automated match to d1b9bb_
        complexed with pgh
      2. 2079015Domain d3taob_: 3tao B: [185743]
        automated match to d1b9bb_
        complexed with pgh
  14. 2079016Streptomyces coelicolor [TaxId:100226] [275080] (1 PDB entry)
  15. 2079021Thale cress (Arabidopsis thaliana) [TaxId:3702] [268515] (2 PDB entries)
    1. Domains for 4obt:
      1. 2079022Domain d4obta_: 4obt A: [280464]
        automated match to d1tmha_
      2. 2079023Domain d4obtb_: 4obt B: [280463]
        automated match to d1tmha_
    2. Domains for 4ohq:
      1. 2079024Domain d4ohqa_: 4ohq A: [268520]
        automated match to d1m6ja_
      2. 2079025Domain d4ohqb_: 4ohq B: [268516]
        automated match to d1m6ja_
  16. 2079026Trichomonas vaginalis [TaxId:5722] [195009] (11 PDB entries)
    1. Domain for 3qsr:
    2. Domain for 3qst:
    3. Domain for 4o4v:
    4. Domain for 4o4w:
    5. Domain for 4o50:
    6. Domain for 4o52:
    7. Domain for 4o53:
    8. Domain for 4o54:
    9. Domain for 4o57:
    10. Domain for 4rcx:
    11. Domain for 4wje:
  17. 2079038Trypanosoma cruzi [TaxId:5693] [228042] (2 PDB entries)
    1. Domains for 4hhp:
      1. 2079039Domain d4hhpa_: 4hhp A: [234648]
        automated match to d4hhpb_
        complexed with gol, so4; mutant
      2. 2079040Domain d4hhpb_: 4hhp B: [228302]
        automated match to d4ff7a_
        complexed with gol, so4; mutant
    2. Domains for 4jeq:
      1. 2079041Domain d4jeqa_: 4jeq A: [234974]
        automated match to d4jeqf_
        complexed with peg, so4
      2. 2079042Domain d4jeqb_: 4jeq B: [234973]
        automated match to d4jeqf_
        complexed with peg, so4
      3. 2079043Domain d4jeqc_: 4jeq C: [234976]
        automated match to d4jeqf_
        complexed with peg, so4
      4. 2079044Domain d4jeqd_: 4jeq D: [234975]
        automated match to d4jeqf_
        complexed with peg, so4
      5. 2079045Domain d4jeqe_: 4jeq E: [228044]
        automated match to d4ff7a_
        complexed with peg, so4
      6. 2079046Domain d4jeqf_: 4jeq F: [228043]
        automated match to d4ff7a_
        complexed with peg, so4
      7. 2079047Domain d4jeqg_: 4jeq G: [234980]
        automated match to d4jeqf_
        complexed with peg, so4
      8. 2079048Domain d4jeqh_: 4jeq H: [234979]
        automated match to d4jeqf_
        complexed with peg, so4
      9. 2079049Domain d4jeqi_: 4jeq I: [234978]
        automated match to d4jeqf_
        complexed with peg, so4
      10. 2079050Domain d4jeqj_: 4jeq J: [234981]
        automated match to d4jeqf_
        complexed with peg, so4
      11. 2079051Domain d4jeqk_: 4jeq K: [234982]
        automated match to d4jeqf_
        complexed with peg, so4
      12. 2079052Domain d4jeql_: 4jeq L: [234983]
        automated match to d4jeqf_
        complexed with peg, so4
  18. 2268457Leptospira interrogans [TaxId:1291351] [311763] (2 PDB entries)
    1. Domain for 4x22:
    2. Domains for 4ymz:
      1. 2268823Domain d4ymza_: 4ymz A: [312129]
        automated match to d3uwub_
        complexed with 13p, edo, so4
      2. 2268892Domain d4ymzb_: 4ymz B: [312198]
        automated match to d3uwub_
        complexed with 13p, edo, so4
  19. 2274785Thermoplasma acidophilum [TaxId:273075] [318086] (2 PDB entries)
    1. Domains for 5csr:
      1. 2274797Domain d5csrc1: 5csr C:1-216 [318098]
        Other proteins in same PDB: d5csrc2, d5csrd2
        automated match to d2h6ra_
        complexed with cl, gol
      2. 2274806Domain d5csra_: 5csr A: [318107]
        Other proteins in same PDB: d5csrc2, d5csrd2
        automated match to d2h6ra_
        complexed with cl, gol
      3. 2274825Domain d5csrd1: 5csr D:1-216 [318126]
        Other proteins in same PDB: d5csrc2, d5csrd2
        automated match to d2h6ra_
        complexed with cl, gol
      4. 2274827Domain d5csrb_: 5csr B: [318128]
        Other proteins in same PDB: d5csrc2, d5csrd2
        automated match to d2h6ra_
        complexed with cl, gol
    2. Domains for 5css:
      1. 2274786Domain d5cssb_: 5css B: [318087]
        automated match to d2h6ra_
        complexed with cl, g3p
      2. 2274787Domain d5cssa_: 5css A: [318088]
        automated match to d2h6ra_
        complexed with cl, g3p
      3. 2274815Domain d5cssd_: 5css D: [318116]
        automated match to d2h6ra_
        complexed with cl, g3p
      4. 2274828Domain d5cssc_: 5css C: [318129]
        automated match to d2h6ra_
        complexed with cl, g3p
  20. 2286293Francisella tularensis [TaxId:177416] [329594] (1 PDB entry)
  21. 2286918Toxoplasma gondii [TaxId:508771] [330219] (1 PDB entry)

More info for Protein automated matches from c.1.1.0: automated matches

Timeline for Protein automated matches from c.1.1.0: automated matches: