SMTL ID : 2uz1.1

1.65 Angstrom structure of Benzaldehyde Lyase complexed with 2-methyl- 2,4-pentanediol

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

hetero-2-2-mer

Ligands

4 x TPP: THIAMINE DIPHOSPHATE(Non-covalent)

TPP.1: 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: L.25, H.26, G.27, E.50, T.73, G.76, G.77, N.80, Q.113 19 PLIP interactions: 16 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:W.478, A:W.478, B:T.73 Hydrogen bonds: A:A.394, A:L.395, A:T.396, A:T.396, A:T.396, A:G.419, A:M.421, A:G.447, A:G.449, A:S.450, A:Y.453, A:N.475, A:G.479, A:A.480 Water bridges: B:G.77, B:G.77 TPP.2: 27 residues within 4Å: Chain A: L.25, 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 19 PLIP interactions: 15 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:W.478, B:W.478, B:T.481, A:T.73 Hydrogen bonds: B:A.394, B:L.395, B:T.396, B:T.396, B:G.419, B:M.421, B:G.449, B:S.450, B:Y.453, B:N.475, B:G.479, B:A.480 Water bridges: A:E.50, A:G.77, A:G.77 TPP.5: 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: L.25, H.26, G.27, E.50, T.73, G.76, G.77, N.80, Q.113 19 PLIP interactions: 16 interactions with chain C, 3 interactions with chain D Hydrophobic interactions: C:W.478, C:W.478, C:T.481, D:T.73 Hydrogen bonds: C:A.394, C:L.395, C:T.396, C:T.396, C:T.396, C:G.419, C:M.421, C:G.449, C:S.450, C:Y.453, C:N.475, C:G.479, C:A.480 Water bridges: D:G.77, D:G.77 TPP.7: 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, T.481 17 PLIP interactions: 13 interactions with chain D, 4 interactions with chain C Hydrophobic interactions: D:W.478, D:W.478, C:T.73 Hydrogen bonds: D:A.394, D:L.395, D:T.396, D:T.396, D:G.419, D:M.421, D:G.449, D:S.450, D:N.475, D:G.479, D:A.480 Water bridges: C:E.50, C:G.77, C:G.77

3 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.3: 5 residues within 4Å: Chain B: A.65, K.66, L.150, R.154, R.217 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:L.150, B:R.154 Water bridges: B:L.150 MPD.4: 3 residues within 4Å: Chain B: A.17, K.66, L.67 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:L.67 Hydrogen bonds: B:L.67 Water bridges: B:K.66, B:L.67 MPD.6: 5 residues within 4Å: Chain C: R.105, D.106, W.163, D.164, M.167 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:W.163, C:W.163, C:W.163 Hydrogen bonds: C:R.105, C:R.105

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Maraite, A. et al., Structure of the Thdp-Dependent Enzyme Benzaldehyde Lyase Refined to 1.65 A Resolution. Acta Crystallogr.,Sect.F (2007)

Release Date

2007-07-24

Peptides

BENZALDEHYDE LYASE: AD
BENZALDEHYDE LYASE: BC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D
D

B
B

C
C

BENZALDEHYDE LYASE

BENZALDEHYDE LYASE

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