SMTL ID : 3pfc.1

Crystal structure of the Lactobacillus johnsonii cinnamoyl esterase LJ0536 S106A mutant in complex with ferulic acid

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-dimer

Ligands

2 x FER: 3-(4-HYDROXY-3-METHOXYPHENYL)-2-PROPENOIC ACID(Non-covalent)

FER.1: 11 residues within 4Å: Chain A: G.54, F.55, A.127, Q.128, A.153, L.156, D.159, T.165, Q.166, Y.190, H.246 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:F.55, A:A.127, A:A.153, A:L.156 Hydrogen bonds: A:F.55, A:Q.128, A:D.159, A:Y.190 Water bridges: A:Q.166 Salt bridges: A:H.246 FER.17: 11 residues within 4Å: Chain B: G.54, F.55, A.127, Q.128, A.153, L.156, D.159, T.165, Q.166, Y.190, H.246 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:F.55, B:A.127, B:A.153, B:L.156 Hydrogen bonds: B:F.55, B:Q.128, B:D.159, B:D.159 Water bridges: B:Q.166 Salt bridges: B:H.246

6 x NA: SODIUM ION(Non-functional Binders)

NA.2: 4 residues within 4Å: Chain A: D.217, T.219, D.245, H.246 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.217, A:T.219, A:H.246 NA.3: 3 residues within 4Å: Chain A: K.227, L.238, L.240 2 PLIP interactions: 2 interactions with chain A Water bridges: A:K.227, A:K.227 NA.4: 1 residues within 4Å: Chain A: R.119 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.119 NA.18: 4 residues within 4Å: Chain B: D.217, T.219, D.245, H.246 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.217, B:T.219, B:H.246 NA.19: 3 residues within 4Å: Chain B: K.227, L.238, L.240 2 PLIP interactions: 2 interactions with chain B Water bridges: B:K.227, B:K.227 NA.20: 1 residues within 4Å: Chain B: R.119 No protein-ligand interaction detected (PLIP)

22 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 4 residues within 4Å: Chain A: P.41, F.42, R.72, N.75 Ligand excluded by PLIP CL.6: 3 residues within 4Å: Chain A: N.16, L.17, H.117 Ligand excluded by PLIP CL.7: 1 residues within 4Å: Chain A: K.157 Ligand excluded by PLIP CL.8: 1 residues within 4Å: Ligands: CL.9 Ligand excluded by PLIP CL.9: 3 residues within 4Å: Chain A: R.65, N.69 Ligands: CL.8 Ligand excluded by PLIP CL.10: 3 residues within 4Å: Chain A: L.99 Chain B: L.99 Ligands: CL.26 Ligand excluded by PLIP CL.11: 5 residues within 4Å: Chain A: H.53, G.54, A.57, L.64, H.126 Ligand excluded by PLIP CL.12: 2 residues within 4Å: Chain A: T.61, S.62 Ligand excluded by PLIP CL.13: 2 residues within 4Å: Chain A: I.25, T.26 Ligand excluded by PLIP CL.14: 1 residues within 4Å: Chain A: E.242 Ligand excluded by PLIP CL.15: 2 residues within 4Å: Chain A: R.119, N.120 Ligand excluded by PLIP CL.21: 4 residues within 4Å: Chain B: P.41, F.42, R.72, N.75 Ligand excluded by PLIP CL.22: 3 residues within 4Å: Chain B: N.16, L.17, H.117 Ligand excluded by PLIP CL.23: 1 residues within 4Å: Chain B: K.157 Ligand excluded by PLIP CL.24: 1 residues within 4Å: Ligands: CL.25 Ligand excluded by PLIP CL.25: 3 residues within 4Å: Chain B: R.65, N.69 Ligands: CL.24 Ligand excluded by PLIP CL.26: 3 residues within 4Å: Chain A: L.99 Chain B: L.99 Ligands: CL.10 Ligand excluded by PLIP CL.27: 5 residues within 4Å: Chain B: H.53, G.54, A.57, L.64, H.126 Ligand excluded by PLIP CL.28: 2 residues within 4Å: Chain B: T.61, S.62 Ligand excluded by PLIP CL.29: 2 residues within 4Å: Chain B: I.25, T.26 Ligand excluded by PLIP CL.30: 1 residues within 4Å: Chain B: E.242 Ligand excluded by PLIP CL.31: 2 residues within 4Å: Chain B: R.119, N.120 Ligand excluded by PLIP

2 x PE4: 2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL(Non-functional Binders)

PE4.16: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) PE4.32: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lai, K.K. et al., An Inserted alpha/beta Subdomain Shapes the Catalytic Pocket of Lactobacillus johnsonii Cinnamoyl Esterase. Plos One (2011)

Release Date

2011-08-31

Peptides

Cinnamoyl esterase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Cinnamoyl esterase

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