SMTL ID : 1gkp.1 (1 other biounit)

D-Hydantoinase (Dihydropyrimidinase) from Thermus sp. in space group C2221

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.30 Å

Oligo State

homo-tetramer

Ligands

8 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: K.149, H.182, H.238, S.287 Ligands: ZN.2 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.182, A:H.238, H2O.24, H2O.24 ZN.2: 5 residues within 4Å: Chain A: H.58, H.60, K.149, D.314 Ligands: ZN.1 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.58, A:H.60, A:D.314, H2O.24 ZN.4: 5 residues within 4Å: Chain B: K.149, H.182, H.238, S.287 Ligands: ZN.5 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.182, B:H.238, H2O.46, H2O.46 ZN.5: 5 residues within 4Å: Chain B: H.58, H.60, K.149, D.314 Ligands: ZN.4 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.58, B:H.60, B:D.314, H2O.46 ZN.7: 5 residues within 4Å: Chain C: K.149, H.182, H.238, S.287 Ligands: ZN.8 4 PLIP interactions: 2 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:H.182, C:H.238, H2O.70, H2O.70 ZN.8: 5 residues within 4Å: Chain C: H.58, H.60, K.149, D.314 Ligands: ZN.7 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:H.58, C:H.60, C:D.314, H2O.70 ZN.10: 5 residues within 4Å: Chain D: K.149, H.182, H.238, S.287 Ligands: ZN.11 4 PLIP interactions: 2 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:H.182, D:H.238, H2O.93, H2O.93 ZN.11: 5 residues within 4Å: Chain D: H.58, H.60, K.149, D.314 Ligands: ZN.10 4 PLIP interactions: 3 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:H.58, D:H.60, D:D.314, H2O.93

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 4 residues within 4Å: Chain A: K.369, K.372 Chain B: H.360, R.361 7 PLIP interactions: 5 interactions with chain A, 2 interactions with chain B Water bridges: A:D.364, A:K.369, A:K.369, B:R.361 Salt bridges: A:K.369, A:K.372, B:R.361 SO4.6: 4 residues within 4Å: Chain A: H.360, R.361 Chain B: K.369, K.372 5 PLIP interactions: 5 interactions with chain B Water bridges: B:K.369, B:K.369, B:K.369 Salt bridges: B:K.369, B:K.372 SO4.9: 4 residues within 4Å: Chain C: K.369, K.372 Chain D: H.360, R.361 7 PLIP interactions: 5 interactions with chain C, 2 interactions with chain D Water bridges: C:D.364, C:K.369, C:K.369, D:R.361 Salt bridges: C:K.369, C:K.372, D:R.361 SO4.12: 4 residues within 4Å: Chain C: H.360, R.361 Chain D: K.369, K.372 5 PLIP interactions: 5 interactions with chain D Water bridges: D:K.369, D:K.369, D:K.369 Salt bridges: D:K.369, D:K.372

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Abendroth, J. et al., X-Ray Structure of a Dihydropyrimidinase from Thermus Sp. At 1.3 A Resolution. J.Mol.Biol. (2002)

Release Date

2002-06-27

Peptides

HYDANTOINASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

HYDANTOINASE

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