SMTL ID : 3r75.1

Crystal structure of 2-amino-2-desoxyisochorismate synthase (ADIC) synthase PhzE from Burkholderia lata 383 in complex with benzoate, pyruvate, glutamine and contaminating Zn2+

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

3 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.1: 5 residues within 4Å: Chain A: G.220, K.242, E.246, E.384 Ligands: BEZ.2 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.246, A:E.384, H2O.5, H2O.6 MG.6: 3 residues within 4Å: Chain B: E.246, E.384 Ligands: BEZ.7 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.246, B:E.384, H2O.21, H2O.21 MG.11: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

2 x BEZ: BENZOIC ACID(Non-covalent)

BEZ.2: 15 residues within 4Å: Chain A: E.203, I.218, S.219, G.220, T.221, E.246, H.281, T.306, R.354, S.370, T.371, E.384, K.388 Ligands: MG.1, PYR.3 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:I.218 Hydrogen bonds: A:G.220, A:T.221, A:T.221, A:T.371 Water bridges: A:T.221 Salt bridges: A:K.388 BEZ.7: 15 residues within 4Å: Chain B: E.203, I.218, S.219, G.220, T.221, E.246, H.281, T.306, R.354, S.370, T.371, E.384, K.388 Ligands: MG.6, PYR.8 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:I.218 Hydrogen bonds: B:G.220, B:T.221, B:T.371, B:T.371 Water bridges: B:T.221 Salt bridges: B:K.388

2 x PYR: PYRUVIC ACID(Non-covalent)

PYR.3: 8 residues within 4Å: Chain A: T.306, Y.330, I.353, R.354, V.368, G.369, K.388 Ligands: BEZ.2 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:Y.330, A:Y.330, A:R.354, A:G.369, A:K.388 Water bridges: A:R.354 Salt bridges: A:R.354, A:K.388 PYR.8: 10 residues within 4Å: Chain B: V.153, T.306, V.307, Y.330, I.353, R.354, V.368, G.369, K.388 Ligands: BEZ.7 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:V.153, B:V.307 Hydrogen bonds: B:R.354, B:G.369, B:K.388 Water bridges: B:R.354 Salt bridges: B:R.354, B:K.388

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.4: 5 residues within 4Å: Chain A: S.29, Y.185, R.204, R.274, F.285 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.29 Water bridges: A:R.274 Salt bridges: A:R.204, A:R.274 PO4.9: 6 residues within 4Å: Chain B: S.29, Y.185, R.204, N.216, R.274, F.285 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.29 Salt bridges: B:R.204, B:R.274

2 x ZN: ZINC ION(Non-covalent)

ZN.5: 3 residues within 4Å: Chain A: C.528, Y.568, H.613 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:Y.568, A:H.613, H2O.1 ZN.10: 3 residues within 4Å: Chain B: C.528, Y.568, H.613 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:Y.568, B:H.613, H2O.17

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, Q.A. et al., Ligand Binding Induces an Ammonia Channel in 2-Amino-2-desoxyisochorismate (ADIC) Synthase PhzE. J.Biol.Chem. (2011)

Release Date

2011-03-30

Peptides

Anthranilate/para-aminobenzoate synthases component I: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Anthranilate/para-aminobenzoate synthases component I

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