SMTL ID : 2glq.1

X-ray structure of human alkaline phosphatase in complex with strontium

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-dimer

Ligands

4 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 1 residues within 4Å: Chain A: N.122 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.122 Water bridges: A:Q.120, A:N.122 NAG.2: 4 residues within 4Å: Chain A: W.248, N.249, E.252, L.284 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.284 Hydrogen bonds: A:N.249 Water bridges: A:T.251, A:T.251 NAG.7: 1 residues within 4Å: Chain B: N.122 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.122 Water bridges: B:Q.120, B:N.122 NAG.8: 4 residues within 4Å: Chain B: W.248, N.249, E.252, L.284 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:L.284 Hydrogen bonds: B:N.249 Water bridges: B:T.251, B:T.251

4 x ZN: ZINC ION(Non-covalent)

ZN.3: 5 residues within 4Å: Chain A: S.92, D.316, H.320, H.358, H.432 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:S.92, A:D.316, A:H.320, A:H.432, H2O.23 ZN.4: 5 residues within 4Å: Chain A: D.42, S.92, D.316, D.357, H.358 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.42, A:D.42, A:S.92, A:D.357, A:H.358 ZN.9: 5 residues within 4Å: Chain B: S.92, D.316, H.320, H.358, H.432 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:S.92, B:D.316, B:H.320, B:H.432, H2O.46 ZN.10: 5 residues within 4Å: Chain B: D.42, S.92, D.316, D.357, H.358 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.42, B:D.42, B:S.92, B:D.357, B:H.358

2 x MG: MAGNESIUM ION(Non-covalent)

MG.5: 3 residues within 4Å: Chain A: D.42, S.155, E.311 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.42, A:S.155, A:E.311, H2O.1, H2O.23 MG.11: 3 residues within 4Å: Chain B: D.42, S.155, E.311 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.42, B:S.155, B:E.311, H2O.24, H2O.46

2 x SR: STRONTIUM ION(Non-functional Binders)

SR.6: 4 residues within 4Å: Chain A: E.216, F.269, E.270, D.285 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.216, A:F.269, A:E.270, A:D.285, H2O.5 SR.12: 4 residues within 4Å: Chain B: E.216, F.269, E.270, D.285 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.216, B:F.269, B:E.270, B:D.285, H2O.28

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Llinas, P. et al., Structural studies of human alkaline phosphatase in complex with strontium: Implication for its secondary effect in bones. Protein Sci. (2006)

Release Date

2006-04-25

Peptides

Alkaline phosphatase, placental type: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Alkaline phosphatase, placental type

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