SMTL ID : 2ag1.1

Crystal structure of Benzaldehyde lyase (BAL)- SeMet

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.58 Å

Oligo State

homo-tetramer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 6 residues within 4Å: Chain A: D.448, G.449, M.473, N.475, S.477 Ligands: TPP.2 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.448, A:S.477, H2O.1 MG.3: 5 residues within 4Å: Chain B: D.448, N.475, S.477, G.479 Ligands: TPP.4 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.448, B:S.477, H2O.4 MG.5: 5 residues within 4Å: Chain C: D.448, M.473, N.475, S.477 Ligands: TPP.6 3 PLIP interactions: 2 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.448, C:S.477, H2O.6 MG.7: 5 residues within 4Å: Chain D: D.448, N.475, S.477, G.479 Ligands: TPP.8 3 PLIP interactions: 2 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:D.448, D:S.477, H2O.10

4 x TPP: THIAMINE DIPHOSPHATE(Non-covalent)

TPP.2: 27 residues within 4Å: Chain A: G.393, A.394, L.395, T.396, G.419, S.420, M.421, G.447, D.448, G.449, S.450, Y.453, N.475, S.477, W.478, G.479, A.480, T.481 Chain B: H.26, G.27, E.50, T.73, G.76, G.77, N.80, Q.113 Ligands: MG.1 17 PLIP interactions: 2 interactions with chain B, 15 interactions with chain A Hydrophobic interactions: B:T.73 Water bridges: B:T.73, A:D.448, A:D.448 Hydrogen bonds: A:G.393, A:L.395, A:T.396, A:T.396, A:G.419, A:G.447, A:G.449, A:S.450, A:Y.453, A:N.475, A:N.475, A:G.479, A:A.480 TPP.4: 27 residues within 4Å: Chain A: H.26, G.27, E.50, T.73, G.76, G.77, N.80, Q.113 Chain B: G.393, A.394, L.395, T.396, G.419, S.420, M.421, G.447, D.448, G.449, S.450, Y.453, N.475, S.477, W.478, G.479, A.480, T.481 Ligands: MG.3 16 PLIP interactions: 14 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:G.393, B:L.395, B:T.396, B:T.396, B:G.419, B:G.447, B:D.448, B:G.449, B:S.450, B:N.475, B:G.479, B:A.480 Water bridges: B:D.448, B:D.448, A:Q.113 Hydrophobic interactions: A:T.73 TPP.6: 27 residues within 4Å: Chain C: G.393, A.394, L.395, T.396, G.419, S.420, M.421, G.447, D.448, G.449, S.450, Y.453, N.475, S.477, W.478, G.479, A.480, T.481 Chain D: H.26, G.27, E.50, T.73, G.76, G.77, N.80, Q.113 Ligands: MG.5 16 PLIP interactions: 13 interactions with chain C, 3 interactions with chain D Hydrogen bonds: C:G.393, C:L.395, C:T.396, C:G.419, C:G.447, C:G.449, C:S.450, C:Y.453, C:N.475, C:G.479, C:A.480 Water bridges: C:D.448, C:D.448, D:G.76, D:Q.113 Hydrophobic interactions: D:T.73 TPP.8: 27 residues within 4Å: Chain C: L.25, H.26, G.27, E.50, T.73, G.76, G.77, N.80, Q.113 Chain D: G.393, A.394, L.395, T.396, G.419, S.420, M.421, G.447, D.448, G.449, S.450, Y.453, N.475, S.477, W.478, G.479, A.480 Ligands: MG.7 16 PLIP interactions: 13 interactions with chain D, 3 interactions with chain C Hydrogen bonds: D:G.393, D:L.395, D:T.396, D:G.419, D:G.447, D:G.449, D:S.450, D:N.475, D:N.475, D:G.479, D:A.480 Water bridges: D:D.448, D:D.448, C:G.77, C:G.77 Hydrophobic interactions: C:T.73

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mosbacher, T.G. et al., Structure and mechanism of the ThDP-dependent benzaldehyde lyase from Pseudomonas fluorescens. Febs J. (2005)

Release Date

2006-01-24

Peptides

benzaldehyde lyase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

benzaldehyde lyase

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