SMTL ID : 2q9p.1

Human diphosphoinositol polyphosphate phosphohydrolase 1, Mg-F complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

monomer

Ligands

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

MG.1: 13 residues within 4Å: Chain A: G.72, E.88, E.91, E.92 Ligands: MG.2, MG.3, MG.4, F.7, F.8, F.9, F.13, F.14, IHP.16 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.88, A:E.92 MG.2: 10 residues within 4Å: Chain A: G.72, G.73, E.88, E.92 Ligands: MG.1, MG.3, F.6, F.7, F.14, IHP.16 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:G.72, A:E.92 MG.3: 9 residues within 4Å: Ligands: MG.1, MG.2, MG.4, F.7, F.8, F.10, F.13, F.14, IHP.16 No protein-ligand interaction detected (PLIP) MG.4: 10 residues within 4Å: Chain A: E.88, E.91 Ligands: MG.1, MG.3, F.7, F.8, F.10, F.11, F.12, F.13 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:E.88

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 6 residues within 4Å: Chain A: R.49, S.50, S.52, E.53, E.54, E.55 Ligand excluded by PLIP

10 x F: FLUORIDE ION(Non-covalent)(Non-functional Binders)

F.6: 5 residues within 4Å: Chain A: I.69, G.72, E.92 Ligands: MG.2, IHP.16 No protein-ligand interaction detected (PLIP) F.7: 12 residues within 4Å: Chain A: G.72, G.73, E.88, E.92 Ligands: MG.1, MG.2, MG.3, MG.4, F.8, F.13, F.14, IHP.16 No protein-ligand interaction detected (PLIP) F.8: 11 residues within 4Å: Chain A: G.73, G.74, E.88 Ligands: MG.1, MG.3, MG.4, F.7, F.10, F.11, F.13, IHP.16 No protein-ligand interaction detected (PLIP) F.9: 7 residues within 4Å: Chain A: E.88, E.91, E.92 Ligands: MG.1, F.12, F.13, F.14 No protein-ligand interaction detected (PLIP) F.10: 6 residues within 4Å: Ligands: MG.3, MG.4, F.8, F.11, F.12, F.13 No protein-ligand interaction detected (PLIP) F.11: 8 residues within 4Å: Chain A: G.74, R.87, E.88 Ligands: MG.4, F.8, F.10, F.12, F.13 No protein-ligand interaction detected (PLIP) F.12: 8 residues within 4Å: Chain A: R.87, E.88, E.91 Ligands: MG.4, F.9, F.10, F.11, F.13 No protein-ligand interaction detected (PLIP) F.13: 12 residues within 4Å: Chain A: E.88, E.91 Ligands: MG.1, MG.3, MG.4, F.7, F.8, F.9, F.10, F.11, F.12, F.14 No protein-ligand interaction detected (PLIP) F.14: 9 residues within 4Å: Chain A: E.92, R.137 Ligands: MG.1, MG.2, MG.3, F.7, F.9, F.13, IHP.16 No protein-ligand interaction detected (PLIP) F.15: 3 residues within 4Å: Chain A: N.108, H.113, Q.158 No protein-ligand interaction detected (PLIP)

1 x IHP: INOSITOL HEXAKISPHOSPHATE(Non-covalent)

IHP.16: 22 residues within 4Å: Chain A: R.32, K.40, R.42, S.61, S.62, R.63, I.69, G.72, G.73, G.74, E.92, R.111, H.113, R.137, K.155 Ligands: MG.1, MG.2, MG.3, F.6, F.7, F.8, F.14 23 PLIP interactions: 23 interactions with chain A Hydrogen bonds: A:S.62, A:S.62, A:S.62, A:R.63, A:G.74, A:R.111, A:R.111, A:R.137 Water bridges: A:R.32, A:K.40, A:K.40, A:R.137, A:K.155 Salt bridges: A:R.32, A:K.40, A:K.40, A:K.40, A:R.42, A:R.111, A:H.113, A:R.137, A:K.155, A:K.155

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Thorsell, A.G. et al., Crystal structure of human diphosphoinositol phosphatase 1. Proteins (2009)

Release Date

2007-09-11

Peptides

Diphosphoinositol polyphosphate phosphohydrolase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Diphosphoinositol polyphosphate phosphohydrolase 1

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