SCOPe 2.08: Protein: D-hydantoinase

Lineage for Protein: D-hydantoinase

Root: SCOPe 2.08
Class c: Alpha and beta proteins (a/b) [51349] (148 folds)

Fold c.1: TIM beta/alpha-barrel [51350] (34 superfamilies)
contains parallel beta-sheet barrel, closed; n=8, S=8; strand order 12345678
the first seven superfamilies have similar phosphate-binding sites

Superfamily c.1.9: Metallo-dependent hydrolases [51556] (19 families)
the beta-sheet barrel is similarly distorted and capped by a C-terminal helix
has transition metal ions bound inside the barrel
Family c.1.9.6: Hydantoinase (dihydropyrimidinase), catalytic domain [75073] (5 proteins)
automatically mapped to Pfam PF13147
Protein D-hydantoinase [75074] (4 species)

Species:

Bacillus sp. AR9 [TaxId:301298] [141802] (1 PDB entry)
Uniprot Q5DLU2 2-460
- Domains for 1yny:
  1. Domain d1ynya2: 1yny A:53-384 [123765]
    Other proteins in same PDB: d1ynya1, d1ynyb1
    complexed with mn
  2. Domain d1ynyb2: 1yny B:53-384 [123767]
    Other proteins in same PDB: d1ynya1, d1ynyb1
    automated match to d1ynya2
    complexed with mn
Bacillus stearothermophilus [TaxId:1422] [75076] (1 PDB entry)
- Domains for 1k1d:
  1. Domain d1k1da2: 1k1d A:53-384 [71980]
    Other proteins in same PDB: d1k1da1, d1k1db1, d1k1dc1, d1k1dd1, d1k1de1, d1k1df1, d1k1dg1, d1k1dh1
    complexed with zn
  2. Domain d1k1db2: 1k1d B:53-384 [71982]
    Other proteins in same PDB: d1k1da1, d1k1db1, d1k1dc1, d1k1dd1, d1k1de1, d1k1df1, d1k1dg1, d1k1dh1
    complexed with zn
  3. Domain d1k1dc2: 1k1d C:53-384 [71984]
    Other proteins in same PDB: d1k1da1, d1k1db1, d1k1dc1, d1k1dd1, d1k1de1, d1k1df1, d1k1dg1, d1k1dh1
    complexed with zn
  4. Domain d1k1dd2: 1k1d D:53-384 [71986]
    Other proteins in same PDB: d1k1da1, d1k1db1, d1k1dc1, d1k1dd1, d1k1de1, d1k1df1, d1k1dg1, d1k1dh1
    complexed with zn
  5. Domain d1k1de2: 1k1d E:53-384 [71988]
    Other proteins in same PDB: d1k1da1, d1k1db1, d1k1dc1, d1k1dd1, d1k1de1, d1k1df1, d1k1dg1, d1k1dh1
    complexed with zn
  6. Domain d1k1df2: 1k1d F:53-384 [71990]
    Other proteins in same PDB: d1k1da1, d1k1db1, d1k1dc1, d1k1dd1, d1k1de1, d1k1df1, d1k1dg1, d1k1dh1
    complexed with zn
  7. Domain d1k1dg2: 1k1d G:53-384 [71992]
    Other proteins in same PDB: d1k1da1, d1k1db1, d1k1dc1, d1k1dd1, d1k1de1, d1k1df1, d1k1dg1, d1k1dh1
    complexed with zn
  8. Domain d1k1dh2: 1k1d H:53-384 [71994]
    Other proteins in same PDB: d1k1da1, d1k1db1, d1k1dc1, d1k1dd1, d1k1de1, d1k1df1, d1k1dg1, d1k1dh1
    complexed with zn
Burkholderia pickettii [TaxId:329] [89488] (1 PDB entry)
- Domains for 1nfg:
  1. Domain d1nfga2: 1nfg A:52-381 [85633]
    Other proteins in same PDB: d1nfga1, d1nfgb1, d1nfgc1, d1nfgd1
    complexed with zn
  2. Domain d1nfgb2: 1nfg B:52-381 [85635]
    Other proteins in same PDB: d1nfga1, d1nfgb1, d1nfgc1, d1nfgd1
    complexed with zn
  3. Domain d1nfgc2: 1nfg C:52-381 [85637]
    Other proteins in same PDB: d1nfga1, d1nfgb1, d1nfgc1, d1nfgd1
    complexed with zn
  4. Domain d1nfgd2: 1nfg D:52-381 [85639]
    Other proteins in same PDB: d1nfga1, d1nfgb1, d1nfgc1, d1nfgd1
    complexed with zn
Thermus sp. [TaxId:275] [75075] (2 PDB entries)
1. Domains for 1gkp:
  1. Domain d1gkpa2: 1gkp A:55-389 [70232]
    Other proteins in same PDB: d1gkpa1, d1gkpb1, d1gkpc1, d1gkpd1, d1gkpe1, d1gkpf1
    complexed with epe, so4, zn
  2. Domain d1gkpb2: 1gkp B:55-389 [70234]
    Other proteins in same PDB: d1gkpa1, d1gkpb1, d1gkpc1, d1gkpd1, d1gkpe1, d1gkpf1
    complexed with epe, so4, zn
  3. Domain d1gkpc2: 1gkp C:55-389 [70236]
    Other proteins in same PDB: d1gkpa1, d1gkpb1, d1gkpc1, d1gkpd1, d1gkpe1, d1gkpf1
    complexed with epe, so4, zn
  4. Domain d1gkpd2: 1gkp D:55-389 [70238]
    Other proteins in same PDB: d1gkpa1, d1gkpb1, d1gkpc1, d1gkpd1, d1gkpe1, d1gkpf1
    complexed with epe, so4, zn
  5. Domain d1gkpe2: 1gkp E:55-389 [70240]
    Other proteins in same PDB: d1gkpa1, d1gkpb1, d1gkpc1, d1gkpd1, d1gkpe1, d1gkpf1
    complexed with epe, so4, zn
  6. Domain d1gkpf2: 1gkp F:55-389 [70242]
    Other proteins in same PDB: d1gkpa1, d1gkpb1, d1gkpc1, d1gkpd1, d1gkpe1, d1gkpf1
    complexed with epe, so4, zn
2. Domains for 1gkq:
  1. Domain d1gkqa2: 1gkq A:55-389 [70244]
    Other proteins in same PDB: d1gkqa1, d1gkqb1, d1gkqc1, d1gkqd1
    complexed with zn
  2. Domain d1gkqb2: 1gkq B:55-389 [70246]
    Other proteins in same PDB: d1gkqa1, d1gkqb1, d1gkqc1, d1gkqd1
    complexed with zn
  3. Domain d1gkqc2: 1gkq C:55-389 [70248]
    Other proteins in same PDB: d1gkqa1, d1gkqb1, d1gkqc1, d1gkqd1
    complexed with zn
  4. Domain d1gkqd2: 1gkq D:55-389 [70250]
    Other proteins in same PDB: d1gkqa1, d1gkqb1, d1gkqc1, d1gkqd1
    complexed with zn

More info for Protein D-hydantoinase from c.1.9.6: Hydantoinase (dihydropyrimidinase), catalytic domain

Timeline for Protein D-hydantoinase from c.1.9.6: Hydantoinase (dihydropyrimidinase), catalytic domain:

Protein D-hydantoinase from c.1.9.6: Hydantoinase (dihydropyrimidinase), catalytic domain first appeared in SCOP 1.61
Protein D-hydantoinase from c.1.9.6: Hydantoinase (dihydropyrimidinase), catalytic domain appears in SCOPe 2.07