SMTL ID : 4di8.1 (1 other biounit)

CRYSTAL STRUCTURE OF THE D248A mutant of 2-PYRONE-4,6-DICARBOXYLIC ACID HYDROLASE FROM SPHINGOMONAS PAUCIMOBILIS complexed with substrate at pH 8.5

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.81 Å

Oligo State

monomer

Ligands

1 x 0GZ: 2-oxo-2H-pyran-4,6-dicarboxylic acid(Non-covalent)

0GZ.1: 16 residues within 4Å: Chain A: H.31, H.33, Y.49, A.76, S.77, R.124, R.130, L.131, Y.156, H.180, R.183, R.217, P.252, N.253 Ligands: ACT.2, 0GY.3 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:L.131, A:Y.156 Hydrogen bonds: A:Y.49, A:S.77, A:Y.156, A:Y.156, A:R.183, A:N.253 Water bridges: A:R.124 Salt bridges: A:H.31, A:H.33, A:H.33, A:R.124, A:R.124, A:R.130, A:H.180, A:R.217, A:R.217

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.2: 7 residues within 4Å: Chain A: R.130, R.183, R.217, N.253, M.254 Ligands: 0GZ.1, 0GY.3 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:N.253 Salt bridges: A:R.130, A:R.183, A:R.217

1 x 0GY: (1E,3Z)-4-hydroxybuta-1,3-diene-1,2,4-tricarboxylic acid(Non-covalent)

0GY.3: 17 residues within 4Å: Chain A: H.31, H.33, Y.49, A.76, S.77, R.124, N.126, R.130, L.131, Y.156, H.180, R.183, R.217, P.252, N.253 Ligands: 0GZ.1, ACT.2 25 PLIP interactions: 25 interactions with chain A Hydrophobic interactions: A:L.131, A:Y.156, A:P.252 Hydrogen bonds: A:Y.49, A:S.77, A:R.124, A:R.124, A:N.126, A:Y.156, A:Y.156, A:R.183, A:N.253 Water bridges: A:Q.75, A:R.124, A:R.217, A:R.217 Salt bridges: A:H.31, A:H.33, A:H.33, A:R.124, A:R.124, A:R.130, A:H.180, A:R.217, A:R.217

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hobbs, M.E. et al., Structure and Catalytic Mechanism of LigI: Insight into the Amidohydrolase Enzymes of cog3618 and Lignin Degradation. Biochemistry (2012)

Release Date

2012-10-03

Peptides

2-pyrone-4,6-dicarbaxylate hydrolase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

2-pyrone-4,6-dicarbaxylate hydrolase

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