SMTL ID : 1h7o.1

SCHIFF-BASE COMPLEX OF YEAST 5-AMINOLAEVULINIC ACID DEHYDRATASE WITH 5-AMINOLAEVULINIC ACID AT 1.7 A RESOLUTION

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-octamer

Ligands

8 x DAV: DELTA-AMINO VALERIC ACID(Covalent)

DAV.1: 11 residues within 4Å: Chain A: F.89, D.131, S.179, Y.207, Y.216, F.219, K.263, Y.287, V.289, S.290, Y.329 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:F.219, A:F.219, A:K.263, A:Y.287 Hydrogen bonds: A:D.131, A:S.179, A:Y.287, A:Y.287, A:S.290, A:Y.329 Water bridges: A:K.210 Salt bridges: A:K.263 DAV.3: 11 residues within 4Å: Chain B: F.89, D.131, S.179, Y.207, Y.216, F.219, K.263, Y.287, V.289, S.290, Y.329 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:F.219, B:F.219, B:K.263, B:Y.287 Hydrogen bonds: B:D.131, B:S.179, B:Y.287, B:Y.287, B:S.290, B:Y.329 Water bridges: B:K.210 Salt bridges: B:K.263 DAV.5: 11 residues within 4Å: Chain C: F.89, D.131, S.179, Y.207, Y.216, F.219, K.263, Y.287, V.289, S.290, Y.329 12 PLIP interactions: 12 interactions with chain C Hydrophobic interactions: C:F.219, C:F.219, C:K.263, C:Y.287 Hydrogen bonds: C:D.131, C:S.179, C:Y.287, C:Y.287, C:S.290, C:Y.329 Water bridges: C:K.210 Salt bridges: C:K.263 DAV.7: 11 residues within 4Å: Chain D: F.89, D.131, S.179, Y.207, Y.216, F.219, K.263, Y.287, V.289, S.290, Y.329 10 PLIP interactions: 10 interactions with chain D Hydrophobic interactions: D:F.219, D:F.219, D:K.263, D:Y.287 Hydrogen bonds: D:D.131, D:S.179, D:Y.287, D:S.290 Water bridges: D:K.210 Salt bridges: D:K.263 DAV.9: 11 residues within 4Å: Chain E: F.89, D.131, S.179, Y.207, Y.216, F.219, K.263, Y.287, V.289, S.290, Y.329 10 PLIP interactions: 10 interactions with chain E Hydrophobic interactions: E:F.219, E:F.219, E:K.263, E:Y.287 Hydrogen bonds: E:D.131, E:S.179, E:Y.287, E:S.290 Water bridges: E:K.210 Salt bridges: E:K.263 DAV.11: 11 residues within 4Å: Chain F: F.89, D.131, S.179, Y.207, Y.216, F.219, K.263, Y.287, V.289, S.290, Y.329 12 PLIP interactions: 12 interactions with chain F Hydrophobic interactions: F:F.219, F:F.219, F:K.263, F:Y.287 Hydrogen bonds: F:D.131, F:S.179, F:Y.287, F:Y.287, F:S.290, F:Y.329 Water bridges: F:K.210 Salt bridges: F:K.263 DAV.13: 11 residues within 4Å: Chain G: F.89, D.131, S.179, Y.207, Y.216, F.219, K.263, Y.287, V.289, S.290, Y.329 10 PLIP interactions: 10 interactions with chain G Hydrophobic interactions: G:F.219, G:F.219, G:K.263, G:Y.287 Hydrogen bonds: G:D.131, G:S.179, G:Y.287, G:S.290 Water bridges: G:K.210 Salt bridges: G:K.263 DAV.15: 11 residues within 4Å: Chain H: F.89, D.131, S.179, Y.207, Y.216, F.219, K.263, Y.287, V.289, S.290, Y.329 10 PLIP interactions: 10 interactions with chain H Hydrophobic interactions: H:F.219, H:F.219, H:K.263, H:Y.287 Hydrogen bonds: H:D.131, H:S.179, H:Y.287, H:S.290 Water bridges: H:K.210 Salt bridges: H:K.263

8 x ZN: ZINC ION(Non-covalent)

ZN.2: 3 residues within 4Å: Chain A: C.133, C.135, C.143 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:C.133, A:C.135, A:C.143, H2O.17 ZN.4: 3 residues within 4Å: Chain B: C.133, C.135, C.143 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:C.133, B:C.135, B:C.143, H2O.33 ZN.6: 3 residues within 4Å: Chain C: C.133, C.135, C.143 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:C.133, C:C.135, C:C.143, H2O.50 ZN.8: 3 residues within 4Å: Chain D: C.133, C.135, C.143 4 PLIP interactions: 3 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:C.133, D:C.135, D:C.143, H2O.66 ZN.10: 3 residues within 4Å: Chain E: C.133, C.135, C.143 4 PLIP interactions: 3 interactions with chain E, 1 Ligand-Water interactions Metal complexes: E:C.133, E:C.135, E:C.143, H2O.83 ZN.12: 3 residues within 4Å: Chain F: C.133, C.135, C.143 4 PLIP interactions: 3 interactions with chain F, 1 Ligand-Water interactions Metal complexes: F:C.133, F:C.135, F:C.143, H2O.99 ZN.14: 3 residues within 4Å: Chain G: C.133, C.135, C.143 4 PLIP interactions: 3 interactions with chain G, 1 Ligand-Water interactions Metal complexes: G:C.133, G:C.135, G:C.143, H2O.115 ZN.16: 3 residues within 4Å: Chain H: C.133, C.135, C.143 4 PLIP interactions: 3 interactions with chain H, 1 Ligand-Water interactions Metal complexes: H:C.133, H:C.135, H:C.143, H2O.132

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Erskine, P.T. et al., The X-Ray Structure of Yeast 5-Aminolaevulinic Acid Dehydratase Complexed with Substrate and Three Inhibitors. J.Mol.Biol. (2001)

Release Date

2001-07-10

Peptides

5-AMINOLAEVULINIC ACID DEHYDRATASE: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

G
A

H
A

5-AMINOLAEVULINIC ACID DEHYDRATASE