SMTL ID : 4qro.2 (3 other biounits)

CRYSTAL STRUCTURE of DIHYDROXYBENZOIC ACID DECARBBOXYLASE BPRO_2061 (TARGET EFI-500288) FROM POLAROMONAS SP. JS666 WITH BOUND MANGANESE AND AN INHIBITOR, 2-NITRORESORCINOL

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

homo-dimer

Ligands

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 8 residues within 4Å: Chain A: N.2, G.3, M.47, D.48, G.51, I.52, E.53, R.94 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.3, A:D.48, A:G.51, A:I.52, A:E.53

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.2: 5 residues within 4Å: Chain A: E.8, H.10, H.164, D.287 Ligands: 38L.5 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.8, A:H.10, A:H.164, A:D.287 MN.6: 5 residues within 4Å: Chain B: E.8, H.10, H.164, D.287 Ligands: 38L.8 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:E.8, B:H.10, B:H.164, B:D.287

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

ACT.3: 7 residues within 4Å: Chain A: R.42, L.46, H.50, W.288, N.292, I.293, D.294 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.293, A:D.294 Salt bridges: A:H.50 ACT.4: 5 residues within 4Å: Chain A: L.37, D.38, I.39, Q.40, Q.87 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.38, A:I.39, A:Q.40, A:Q.87 Water bridges: A:D.41 ACT.7: 6 residues within 4Å: Chain B: R.42, L.46, W.288, N.292, I.293, D.294 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:W.288 Hydrogen bonds: B:N.292, B:I.293, B:D.294 Salt bridges: B:H.50

2 x 38L: 2-nitrobenzene-1,3-diol(Non-covalent)

38L.5: 12 residues within 4Å: Chain A: E.8, H.10, F.23, H.164, P.185, F.189, H.218, D.287, F.290 Chain B: R.229, N.234 Ligands: MN.2 8 PLIP interactions: 2 interactions with chain B, 6 interactions with chain A Hydrogen bonds: B:N.234, A:H.218, A:D.287 Water bridges: B:R.229 Hydrophobic interactions: A:F.23, A:F.290 pi-Stacking: A:F.189, A:F.290 38L.8: 12 residues within 4Å: Chain A: R.229, N.234 Chain B: E.8, H.10, F.23, H.164, P.185, F.189, H.218, D.287, F.290 Ligands: MN.6 8 PLIP interactions: 7 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:F.290 Hydrogen bonds: B:H.218, A:N.234 Water bridges: B:D.287, B:E.291 pi-Stacking: B:F.23, B:F.189, B:F.290

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Patskovsky, Y. et al., Crystal Structure of Dihydroxybenzoate Decarboxylase from Frompolaromonas Sp WITH BOUND MANGANESE AND 2-NITRORESORCINOL. To be Published

Release Date

2014-08-06

Peptides

Gamma-resorcylate decarboxylase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Gamma-resorcylate decarboxylase

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