SMTL ID : 4ptk.1

Crystal structure of Staphylococcal IMPase-I complex with 3Mg2+ and Phosphate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-dimer

Ligands

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

PO4.1: 11 residues within 4Å: Chain A: E.76, D.94, I.96, D.97, G.98, T.99, D.215 Ligands: MG.2, MG.3, MG.4, GOL.5 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.98, A:T.99 Water bridges: A:E.77, A:A.100 PO4.8: 11 residues within 4Å: Chain B: E.76, D.94, I.96, D.97, G.98, T.99, D.215 Ligands: MG.6, MG.7, MG.9, GOL.10 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:G.98, B:T.99, B:T.99 Water bridges: B:L.48, B:E.76, B:E.76, B:E.77

6 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 6 residues within 4Å: Chain A: D.94, D.97, D.215 Ligands: PO4.1, MG.3, GOL.5 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.94, A:D.97, A:D.215, H2O.2 MG.3: 7 residues within 4Å: Chain A: E.76, D.94, I.96, D.97 Ligands: PO4.1, MG.2, MG.4 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.76, A:D.94, A:I.96, H2O.1 MG.4: 4 residues within 4Å: Chain A: L.48, E.76 Ligands: PO4.1, MG.3 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.76, H2O.1, H2O.2 MG.6: 6 residues within 4Å: Chain B: E.76, D.94, I.96, D.97 Ligands: PO4.8, MG.9 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.76, B:D.94, B:I.96, H2O.3 MG.7: 4 residues within 4Å: Chain B: D.47, L.48, E.76 Ligands: PO4.8 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:E.76, H2O.3, H2O.3, H2O.3 MG.9: 7 residues within 4Å: Chain B: E.76, D.94, D.97, D.215 Ligands: MG.6, PO4.8, GOL.10 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.94, B:D.97, B:D.215

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 7 residues within 4Å: Chain A: D.97, G.98, A.190, C.191, D.215 Ligands: PO4.1, MG.2 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.97, A:G.98, A:C.191 Water bridges: A:D.94, A:D.215 GOL.10: 7 residues within 4Å: Chain B: D.97, G.189, A.190, C.191, D.215 Ligands: PO4.8, MG.9 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.97, B:G.189, B:C.191

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dutta, A. et al., Structural elucidation of the binding site and mode of inhibition of Li(+) and Mg(2+) in inositol monophosphatase. Febs J. (2014)

Release Date

2014-10-22

Peptides

Inositol monophosphatase family protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Inositol monophosphatase family protein

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