SMTL ID : 1ylv.1

SCHIFF-BASE COMPLEX OF YEAST 5-AMINOLAEVULINIC ACID DEHYDRATASE WITH LAEVULINIC ACID

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

homo-octamer

Ligands

8 x ZN: ZINC ION(Non-covalent)

ZN.1: 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.15 ZN.3: 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.32 ZN.5: 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.7: 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.67 ZN.9: 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.84 ZN.11: 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.101 ZN.13: 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.118 ZN.15: 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.135

8 x SHF: LAEVULINIC ACID(Covalent)

SHF.2: 10 residues within 4Å: Chain A: F.89, K.210, L.215, 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.89, A:Y.216, A:F.219, A:F.219, A:F.219, A:K.263, A:Y.287 Hydrogen bonds: A:L.215, A:Y.287, A:S.290, A:Y.329 Salt bridges: A:K.263 SHF.4: 10 residues within 4Å: Chain B: F.89, K.210, L.215, 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.89, B:Y.216, B:F.219, B:F.219, B:F.219, B:K.263, B:Y.287 Hydrogen bonds: B:L.215, B:Y.287, B:S.290, B:Y.329 Salt bridges: B:K.263 SHF.6: 10 residues within 4Å: Chain C: F.89, K.210, L.215, 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.89, C:Y.216, C:F.219, C:F.219, C:F.219, C:K.263, C:Y.287 Hydrogen bonds: C:L.215, C:Y.287, C:S.290, C:Y.329 Salt bridges: C:K.263 SHF.8: 10 residues within 4Å: Chain D: F.89, K.210, L.215, Y.216, F.219, K.263, Y.287, V.289, S.290, Y.329 12 PLIP interactions: 12 interactions with chain D Hydrophobic interactions: D:F.89, D:Y.216, D:F.219, D:F.219, D:F.219, D:K.263, D:Y.287 Hydrogen bonds: D:L.215, D:Y.287, D:S.290, D:Y.329 Salt bridges: D:K.263 SHF.10: 10 residues within 4Å: Chain E: F.89, K.210, L.215, 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.89, E:Y.216, E:F.219, E:F.219, E:F.219, E:K.263, E:Y.287 Hydrogen bonds: E:L.215, E:S.290 Salt bridges: E:K.263 SHF.12: 10 residues within 4Å: Chain F: F.89, K.210, L.215, Y.216, F.219, K.263, Y.287, V.289, S.290, Y.329 10 PLIP interactions: 10 interactions with chain F Hydrophobic interactions: F:F.89, F:Y.216, F:F.219, F:F.219, F:F.219, F:K.263, F:Y.287 Hydrogen bonds: F:L.215, F:S.290 Salt bridges: F:K.263 SHF.14: 10 residues within 4Å: Chain G: F.89, K.210, L.215, 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.89, G:Y.216, G:F.219, G:F.219, G:F.219, G:K.263, G:Y.287 Hydrogen bonds: G:L.215, G:S.290 Salt bridges: G:K.263 SHF.16: 10 residues within 4Å: Chain H: F.89, K.210, L.215, 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.89, H:Y.216, H:F.219, H:F.219, H:F.219, H:K.263, H:Y.287 Hydrogen bonds: H:L.215, H:S.290 Salt bridges: H:K.263

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Erskine, P.T. et al., The Schiff base complex of yeast 5-aminolaevulinic acid dehydratase with laevulinic acid. Protein Sci. (1999)

Release Date

2000-02-23

Peptides

PROTEIN (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

PROTEIN (5-AMINOLAEVULINIC ACID DEHYDRATASE)