Lineage for Protein: automated matches

  1. Root: SCOPe 2.08
  2. Class d: Alpha and beta proteins (a+b) [53931] (396 folds)
  3. Fold d.21: Diaminopimelate epimerase-like [54505] (1 superfamily)
    mixed beta-sheet folds into a barrel (n=8, S=14) around the central helix
  4. Superfamily d.21.1: Diaminopimelate epimerase-like [54506] (5 families) (S)
    duplication: consists of two similar domain swapped with C-terminal strands
  5. Family d.21.1.0: automated matches [191386] (1 protein)
    not a true family
  6. Protein automated matches [190491] (18 species)
    not a true protein

Species:

  1. Acinetobacter baumannii [TaxId:557600] [314639] (1 PDB entry)
  2. Agrobacterium radiobacter [TaxId:311403] [257598] (1 PDB entry)
  3. Agrobacterium vitis [TaxId:311402] [226728] (2 PDB entries)
    1. Domains for 4k7g:
      1. Domain d4k7gb_: 4k7g B: [235110]
        Other proteins in same PDB: d4k7gd2
        automated match to d4lb0b_
        complexed with act, cit, pyc
      2. Domain d4k7gd1: 4k7g D:1-342 [240401]
        Other proteins in same PDB: d4k7gd2
        automated match to d4k7gb_
        complexed with act, cit, pyc
    2. Domains for 4lb0:
      1. Domain d4lb0a_: 4lb0 A: [224623]
        Other proteins in same PDB: d4lb0b2
        automated match to d4k8la_
        complexed with act, hyp
      2. Domain d4lb0b1: 4lb0 B:1-346 [224624]
        Other proteins in same PDB: d4lb0b2
        automated match to d4k8la_
        complexed with act, hyp
  4. Anthrax bacillus (Bacillus anthracis) [TaxId:1392] [225536] (1 PDB entry)
  5. Burkholderia multivorans [TaxId:395019] [226654] (2 PDB entries)
    1. Domain for 4k7x:
    2. Domains for 4q60:
      1. Domain d4q60a1: 4q60 A:2-310 [257619]
        Other proteins in same PDB: d4q60a2, d4q60b2
        automated match to d4k7gd_
        complexed with gol, pyc
      2. Domain d4q60b1: 4q60 B:2-310 [257620]
        Other proteins in same PDB: d4q60a2, d4q60b2
        automated match to d4k7gd_
        complexed with gol, pyc
  6. Chromohalobacter salexigens [TaxId:290398] [234963] (1 PDB entry)
  7. Clostridium difficile [TaxId:272563] [195841] (1 PDB entry)
  8. Escherichia coli [TaxId:83333] [368985] (1 PDB entry)
  9. Eubacterium barkeri [TaxId:1528] [225714] (1 PDB entry)
  10. Novosphingobium sp. [TaxId:164608] [372398] (3 PDB entries)
    1. Domains for 6p3h:
      1. Domain d6p3ha1: 6p3h A:8-174 [372399]
        Other proteins in same PDB: d6p3ha3, d6p3hb3, d6p3hc3, d6p3hd3
        automated match to d3g7ka1
        complexed with cl, nqm
      2. Domain d6p3ha2: 6p3h A:175-357 [372400]
        Other proteins in same PDB: d6p3ha3, d6p3hb3, d6p3hc3, d6p3hd3
        automated match to d3g7ka2
        complexed with cl, nqm
      3. Domain d6p3hb1: 6p3h B:8-174 [372487]
        Other proteins in same PDB: d6p3ha3, d6p3hb3, d6p3hc3, d6p3hd3
        automated match to d3g7ka1
        complexed with cl, nqm
      4. Domain d6p3hb2: 6p3h B:175-357 [372488]
        Other proteins in same PDB: d6p3ha3, d6p3hb3, d6p3hc3, d6p3hd3
        automated match to d3g7ka2
        complexed with cl, nqm
      5. Domain d6p3hc1: 6p3h C:7-174 [372483]
        Other proteins in same PDB: d6p3ha3, d6p3hb3, d6p3hc3, d6p3hd3
        automated match to d3g7ka1
        complexed with cl, nqm
      6. Domain d6p3hc2: 6p3h C:175-357 [372484]
        Other proteins in same PDB: d6p3ha3, d6p3hb3, d6p3hc3, d6p3hd3
        automated match to d3g7ka2
        complexed with cl, nqm
      7. Domain d6p3hd1: 6p3h D:8-174 [372480]
        Other proteins in same PDB: d6p3ha3, d6p3hb3, d6p3hc3, d6p3hd3
        automated match to d3g7ka1
        complexed with cl, nqm
      8. Domain d6p3hd2: 6p3h D:175-357 [372481]
        Other proteins in same PDB: d6p3ha3, d6p3hb3, d6p3hc3, d6p3hd3
        automated match to d3g7ka2
        complexed with cl, nqm
    2. Domains for 6p3j:
      1. Domain d6p3ja1: 6p3j A:8-174 [372411]
        Other proteins in same PDB: d6p3ja3, d6p3jb3
        automated match to d3g7ka1
        complexed with ca, cl, na
      2. Domain d6p3ja2: 6p3j A:175-357 [372412]
        Other proteins in same PDB: d6p3ja3, d6p3jb3
        automated match to d3g7ka2
        complexed with ca, cl, na
      3. Domain d6p3jb1: 6p3j B:2-174 [372462]
        Other proteins in same PDB: d6p3ja3, d6p3jb3
        automated match to d3g7ka1
        complexed with ca, cl, na
      4. Domain d6p3jb2: 6p3j B:175-357 [372463]
        Other proteins in same PDB: d6p3ja3, d6p3jb3
        automated match to d3g7ka2
        complexed with ca, cl, na
    3. Domains for 6p3k:
      1. Domain d6p3ka1: 6p3k A:8-174 [372470]
        Other proteins in same PDB: d6p3ka3, d6p3kb3
        automated match to d3g7ka1
        complexed with cl
      2. Domain d6p3ka2: 6p3k A:175-357 [372471]
        Other proteins in same PDB: d6p3ka3, d6p3kb3
        automated match to d3g7ka2
        complexed with cl
      3. Domain d6p3kb1: 6p3k B:7-174 [372490]
        Other proteins in same PDB: d6p3ka3, d6p3kb3
        automated match to d3g7ka1
        complexed with cl
      4. Domain d6p3kb2: 6p3k B:175-357 [372491]
        Other proteins in same PDB: d6p3ka3, d6p3kb3
        automated match to d3g7ka2
        complexed with cl
  11. Pseudomonas aeruginosa [TaxId:287] [187433] (1 PDB entry)
  12. Pseudomonas protegens [TaxId:220664] [234939] (2 PDB entries)
    1. Domains for 4j9w:
      1. Domain d4j9wa_: 4j9w A: [234940]
        automated match to d2azpa_
        complexed with gol, na, pyc
      2. Domain d4j9wb_: 4j9w B: [234941]
        automated match to d2azpa_
        complexed with gol, na, pyc
    2. Domains for 4j9x:
      1. Domain d4j9xa_: 4j9x A: [240289]
        automated match to d4j9wa_
        complexed with hyp, na
      2. Domain d4j9xb_: 4j9x B: [234942]
        automated match to d2azpa_
        complexed with hyp, na
  13. Pseudomonas putida [TaxId:351746] [226612] (2 PDB entries)
    1. Domain for 4jbd:
    2. Domains for 4jd7:
      1. Domain d4jd7a1: 4jd7 A:1-308 [223749]
        Other proteins in same PDB: d4jd7a2, d4jd7d2
        automated match to d2azpa_
        complexed with so4
      2. Domain d4jd7d1: 4jd7 D:1-308 [223750]
        Other proteins in same PDB: d4jd7a2, d4jd7d2
        automated match to d2azpa_
        complexed with so4
  14. Shewanella oneidensis [TaxId:211586] [334856] (1 PDB entry)
  15. Shewanella oneidensis [TaxId:70863] [225314] (3 PDB entries)
    1. Domains for 2pvz:
      1. Domain d2pvza1: 2pvz A:5-185 [205656]
        automated match to d2h9fa1
        complexed with ca, edo
      2. Domain d2pvza2: 2pvz A:186-397 [205657]
        automated match to d2h9fa2
        complexed with ca, edo
      3. Domain d2pvzb1: 2pvz B:5-185 [205658]
        automated match to d2h9fa1
        complexed with ca, edo
      4. Domain d2pvzb2: 2pvz B:186-397 [205659]
        automated match to d2h9fa2
        complexed with ca, edo
    2. Domains for 2pw0:
      1. Domain d2pw0a1: 2pw0 A:6-185 [205660]
        automated match to d2h9fa1
        complexed with edo, trc
      2. Domain d2pw0a2: 2pw0 A:186-397 [205661]
        automated match to d2h9fa2
        complexed with edo, trc
      3. Domain d2pw0b1: 2pw0 B:5-185 [205662]
        automated match to d2h9fa1
        complexed with edo, trc
      4. Domain d2pw0b2: 2pw0 B:186-397 [205663]
        automated match to d2h9fa2
        complexed with edo, trc
    3. Domains for 5k87:
      1. Domain d5k87a2: 5k87 A:186-397 [334859]
        automated match to d2pw0a2
        complexed with mli
      2. Domain d5k87b1: 5k87 B:5-185 [334915]
        automated match to d2pw0b1
        complexed with mli
      3. Domain d5k87b2: 5k87 B:186-397 [334916]
        automated match to d2pw0a2
        complexed with mli
  16. Thermococcus litoralis [TaxId:523849] [365392] (3 PDB entries)
    1. Domain for 6j7c:
    2. Domains for 6r76:
      1. Domain d6r76b_: 6r76 B: [371502]
        automated match to d4lb0a_
      2. Domain d6r76d_: 6r76 D: [411767]
        automated match to d6r76b_
      3. Domain d6r76c_: 6r76 C: [411766]
        automated match to d6r76b_
      4. Domain d6r76a_: 6r76 A: [411765]
        automated match to d6r76b_
    3. Domains for 6r77:
      1. Domain d6r77a_: 6r77 A: [416508]
        automated match to d6r76b_
        complexed with hy3
      2. Domain d6r77b_: 6r77 B: [416509]
        automated match to d6r76b_
        complexed with hy3
  17. Trypanosoma cruzi [TaxId:5693] [267764] (5 PDB entries)
    1. Domains for 1w61:
      1. Domain d1w61a1: 1w61 A:42-393 [264191]
        Other proteins in same PDB: d1w61a2, d1w61b2
        automated match to d4q2ha_
        complexed with pyc
      2. Domain d1w61b1: 1w61 B:42-396 [264192]
        Other proteins in same PDB: d1w61a2, d1w61b2
        automated match to d4q2ha_
        complexed with pyc
    2. Domains for 1w62:
      1. Domain d1w62a1: 1w62 A:33-393 [264193]
        Other proteins in same PDB: d1w62a2, d1w62b2
        automated match to d4q2ha_
        complexed with pyc
      2. Domain d1w62b1: 1w62 B:44-393 [264194]
        Other proteins in same PDB: d1w62a2, d1w62b2
        automated match to d4q2ha_
        complexed with pyc
    3. Domains for 6hje:
      1. Domain d6hjea1: 6hje A:38-393 [360078]
        Other proteins in same PDB: d6hjea2, d6hjeb2
        automated match to d1w62a_
        complexed with 7n0, po4
      2. Domain d6hjeb1: 6hje B:43-393 [360109]
        Other proteins in same PDB: d6hjea2, d6hjeb2
        automated match to d1w62a_
        complexed with 7n0, po4
    4. Domains for 6hjf:
      1. Domain d6hjfa1: 6hjf A:40-393 [360060]
        Other proteins in same PDB: d6hjfa2, d6hjfb2
        automated match to d1w62a_
        complexed with shf
      2. Domain d6hjfb1: 6hjf B:45-393 [360001]
        Other proteins in same PDB: d6hjfa2, d6hjfb2
        automated match to d1w62a_
        complexed with shf
    5. Domains for 6hjg:
      1. Domain d6hjga1: 6hjg A:38-393 [359947]
        Other proteins in same PDB: d6hjga2, d6hjgb2
        automated match to d1w62a_
        complexed with po4, shf
      2. Domain d6hjgb1: 6hjg B:21-393 [359955]
        Other proteins in same PDB: d6hjga2, d6hjgb2
        automated match to d1w62a_
        complexed with po4, shf
  18. Xanthomonas campestris [TaxId:190485] [226641] (1 PDB entry)

More info for Protein automated matches from d.21.1.0: automated matches

Timeline for Protein automated matches from d.21.1.0: automated matches: