SMTL ID : 4mlm.1 (2 other biounits)

Crystal Structure of PhnZ from uncultured bacterium HF130_AEPn_1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

2 x FE: FE (III) ION(Non-covalent)

FE.1: 7 residues within 4Å: Chain A: Y.24, H.34, H.58, D.59, D.161 Ligands: FE.2, TLA.3 6 PLIP interactions: 5 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:Y.24, A:H.34, A:H.58, A:D.59, A:D.161, H2O.1 FE.2: 7 residues within 4Å: Chain A: H.58, D.59, H.62, H.80, H.104 Ligands: FE.1, TLA.3 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.59, A:H.80, A:H.104, H2O.1

1 x TLA: L(+)-TARTARIC ACID(Non-covalent)

TLA.3: 13 residues within 4Å: Chain A: Y.24, D.59, H.62, H.80, H.104, V.105, K.108, S.126, T.129, Q.133, R.158 Ligands: FE.1, FE.2 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:Q.133, A:R.158, A:R.158 Salt bridges: A:H.62, A:H.80, A:H.80, A:K.108, A:R.158

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 3 residues within 4Å: Chain A: Q.43, R.44, H.176 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.43 Water bridges: A:R.44 Salt bridges: A:R.44, A:H.176 SO4.5: 2 residues within 4Å: Chain A: K.152, D.153 4 PLIP interactions: 4 interactions with chain A Water bridges: A:E.149, A:K.152, A:D.153 Salt bridges: A:K.152

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 4 residues within 4Å: Chain A: F.41, R.44, S.45, K.163 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:F.41, A:K.163 Water bridges: A:R.44, A:S.45

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

van Staalduinen, L.M. et al., Crystal structure of PhnZ in complex with substrate reveals a di-iron oxygenase mechanism for catabolism of organophosphonates. Proc.Natl.Acad.Sci.USA (2014)

Release Date

2014-04-16

Peptides

Predicted HD phosphohydrolase PhnZ: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Predicted HD phosphohydrolase PhnZ

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