SCOPe 2.08: Protein: automated matches

Lineage for Protein: automated matches

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

Species:

Acinetobacter baumannii [TaxId:557600] [314639] (1 PDB entry)
- Domains for 5ha4:
  1. Domain d5ha4a1: 5ha4 A:1-132 [314678]
    Other proteins in same PDB: d5ha4b3
    automated match to d4ijza1
    complexed with cl, mrd
  2. Domain d5ha4a2: 5ha4 A:133-280 [314679]
    Other proteins in same PDB: d5ha4b3
    automated match to d4ijza2
    complexed with cl, mrd
  3. Domain d5ha4b1: 5ha4 B:1-132 [314640]
    Other proteins in same PDB: d5ha4b3
    automated match to d4ijza1
    complexed with cl, mrd
  4. Domain d5ha4b2: 5ha4 B:133-280 [314641]
    Other proteins in same PDB: d5ha4b3
    automated match to d4ijza2
    complexed with cl, mrd
Agrobacterium radiobacter [TaxId:311403] [257598] (1 PDB entry)
- Domains for 4q2h:
  1. Domain d4q2ha1: 4q2h A:1-345 [257599]
    Other proteins in same PDB: d4q2ha2
    automated match to d4k7gd_
    complexed with bct, gol
  2. Domain d4q2hb_: 4q2h B: [257600]
    Other proteins in same PDB: d4q2ha2
    automated match to d4k7gd_
    complexed with bct, gol
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
Anthrax bacillus (Bacillus anthracis) [TaxId:1392] [225536] (1 PDB entry)
- Domains for 3edn:
  1. Domain d3edna1: 3edn A:1-131 [209462]
    automated match to d1qy9a1
    complexed with mg, sin, so4
  2. Domain d3edna2: 3edn A:132-299 [209463]
    automated match to d1qy9a2
    complexed with mg, sin, so4
  3. Domain d3ednb1: 3edn B:1-131 [209464]
    automated match to d1qy9a1
    complexed with mg, sin, so4
  4. Domain d3ednb2: 3edn B:132-299 [209465]
    automated match to d1qy9a2
    complexed with mg, sin, so4
Burkholderia multivorans [TaxId:395019] [226654] (2 PDB entries)
1. Domain for 4k7x:
  - Domain d4k7xa1: 4k7x A:1-310 [224202]
    Other proteins in same PDB: d4k7xa2
    automated match to d1tm0a_
    complexed with cl, gol, na, po4
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
Chromohalobacter salexigens [TaxId:290398] [234963] (1 PDB entry)
- Domains for 4jci:
  1. Domain d4jcia1: 4jci A:1-309 [234964]
    Other proteins in same PDB: d4jcia2
    automated match to d2azpa_
    complexed with na
  2. Domain d4jcib_: 4jci B: [234965]
    Other proteins in same PDB: d4jcia2
    automated match to d2azpa_
    complexed with na
Clostridium difficile [TaxId:272563] [195841] (1 PDB entry)
- Domain for 4dun:
  - Domain d4duna1: 4dun A:1-258 [195842]
    Other proteins in same PDB: d4duna2
    automated match to d1s7ja_
    complexed with btb, ni, so4
Escherichia coli [TaxId:83333] [368985] (1 PDB entry)
- Domains for 6otv:
  1. Domain d6otva1: 6otv A:7-173 [369011]
    automated match to d3g7ka1
    complexed with act, edo, po4
  2. Domain d6otva2: 6otv A:174-356 [369012]
    automated match to d3g7ka2
    complexed with act, edo, po4
  3. Domain d6otvb1: 6otv B:7-173 [368986]
    automated match to d3g7ka1
    complexed with act, edo, po4
  4. Domain d6otvb2: 6otv B:174-356 [368987]
    automated match to d3g7ka2
    complexed with act, edo, po4
Eubacterium barkeri [TaxId:1528] [225714] (1 PDB entry)
- Domains for 3g7k:
  1. Domain d3g7ka1: 3g7k A:2-170 [210431]
    Other proteins in same PDB: d3g7kb3
    automated match to d2h9fa1
  2. Domain d3g7ka2: 3g7k A:171-380 [210432]
    Other proteins in same PDB: d3g7kb3
    automated match to d2h9fa2
  3. Domain d3g7kb1: 3g7k B:2-170 [210433]
    Other proteins in same PDB: d3g7kb3
    automated match to d2h9fa1
  4. Domain d3g7kb2: 3g7k B:171-380 [210434]
    Other proteins in same PDB: d3g7kb3
    automated match to d2h9fa2
  5. Domain d3g7kc1: 3g7k C:2-170 [210435]
    Other proteins in same PDB: d3g7kb3
    automated match to d2h9fa1
  6. Domain d3g7kc2: 3g7k C:171-380 [210436]
    Other proteins in same PDB: d3g7kb3
    automated match to d2h9fa2
  7. Domain d3g7kd1: 3g7k D:2-170 [210437]
    Other proteins in same PDB: d3g7kb3
    automated match to d2h9fa1
  8. Domain d3g7kd2: 3g7k D:171-380 [210438]
    Other proteins in same PDB: d3g7kb3
    automated match to d2h9fa2
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
Pseudomonas aeruginosa [TaxId:287] [187433] (1 PDB entry)
- Domain for 2azp:
  - Domain d2azpa1: 2azp A:1-314 [162951]
    Other proteins in same PDB: d2azpa2, d2azpa3
    automated match to d1tm0a_
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
Pseudomonas putida [TaxId:351746] [226612] (2 PDB entries)
1. Domain for 4jbd:
  - Domain d4jbda_: 4jbd A: [223674]
    automated match to d2azpa_
    complexed with cit
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
Shewanella oneidensis [TaxId:211586] [334856] (1 PDB entry)
- Domain for 5k87:
  - Domain d5k87a1: 5k87 A:5-185 [334858]
    automated match to d2pw0b1
    complexed with mli
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
Thermococcus litoralis [TaxId:523849] [365392] (3 PDB entries)
1. Domain for 6j7c:
  - Domain d6j7ca1: 6j7c A:2-331 [365393]
    Other proteins in same PDB: d6j7ca2
    automated match to d1w61a_
    complexed with pro
2. Domains for 6r76:
  1. Domain d6r76a_: 6r76 A: [411765]
    automated match to d6r76b_
  2. Domain d6r76b_: 6r76 B: [371502]
    automated match to d4lb0a_
  3. Domain d6r76c_: 6r76 C: [411766]
    automated match to d6r76b_
  4. Domain d6r76d_: 6r76 D: [411767]
    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
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
Xanthomonas campestris [TaxId:190485] [226641] (1 PDB entry)
- Domains for 4juu:
  1. Domain d4juua1: 4juu A:1-312 [224040]
    Other proteins in same PDB: d4juua2
    automated match to d1tm0a_
    complexed with cl, po4, unl
  2. Domain d4juub_: 4juu B: [224041]
    Other proteins in same PDB: d4juua2
    automated match to d1tm0a_
    complexed with cl, po4, unl

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:

Protein automated matches from d.21.1.0: automated matches first appeared in SCOPe 2.01
Protein automated matches from d.21.1.0: automated matches appears in SCOPe 2.07