SMTL ID : 3qpe.2 (1 other biounit)

Crystal structure of Galacturonate Dehydratase from GEOBACILLUS SP. complexed with D-Galacturonate and 5-keto-4-deoxy-D-Galacturonate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain A: D.207, E.233, E.234, E.263 Ligands: D54.3 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.207, A:E.233, A:E.263, H2O.6 MG.2: 3 residues within 4Å: Chain A: E.234, E.238, D.261 6 PLIP interactions: 3 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.234, A:E.238, A:D.261, H2O.5, H2O.6, H2O.6 MG.5: 5 residues within 4Å: Chain B: K.170, D.207, E.233, E.263 Ligands: D54.7 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.207, B:E.233, B:E.263, H2O.15 MG.6: 3 residues within 4Å: Chain B: E.234, E.238, D.261 6 PLIP interactions: 3 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:E.234, B:E.238, B:D.261, H2O.12, H2O.15, H2O.15

2 x D54: 4-deoxy-L-threo-hex-5-ulosuronic acid(Non-covalent)

D54.3: 15 residues within 4Å: Chain A: N.33, I.36, H.39, Y.136, K.168, K.170, D.207, N.209, E.233, E.263, H.311, Y.313, E.336 Ligands: MG.1, GOL.4 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:N.33, A:H.39, A:Y.136, A:K.170, A:D.207, A:N.209 Water bridges: A:Y.131 Salt bridges: A:K.168, A:K.170, A:H.311 D54.7: 14 residues within 4Å: Chain B: N.33, I.36, H.39, Y.136, K.168, K.170, D.207, N.209, E.233, E.263, H.311, Y.313, E.336 Ligands: MG.5 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:N.33, B:H.39, B:K.170, B:D.207, B:N.209 Water bridges: B:Y.131, B:Y.136, B:E.336 Salt bridges: B:K.168, B:K.170, B:H.311

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 6 residues within 4Å: Chain A: R.26, H.39, S.42, Y.313, G.314 Ligands: D54.3 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.26, A:R.26, A:H.39 Water bridges: A:G.314, A:G.314, A:G.314

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fedorov, A.A. et al., Crystal structure of Galacturonate Dehydratase from GEOBACILLUS SP. complexed with D-Galacturonate and 5-keto-4-deoxy-D-Galacturonate. To be Published

Release Date

2012-02-15

Peptides

Mandelate racemase/muconate lactonizing protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Mandelate racemase/muconate lactonizing protein

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