SMTL ID : 6wev.2 (1 other biounit)

Crystal structures of human E-NPP 1: bound to N-{[1-(6,7-dimethoxy-5,8-dihydroquinazolin-4-yl)piperidin-4-yl]methyl}sulfuric diamide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

monomer

Ligands

1 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.1: 10 residues within 4Å: Chain A: L.267, S.271, K.503, P.583, N.584, N.585, D.804, G.805, R.806, H.894 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.503, A:D.804, A:D.804

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.2: 3 residues within 4Å: Chain A: N.341, S.343, V.344 No protein-ligand interaction detected (PLIP)

2 x ZN: ZINC ION(Non-covalent)

ZN.3: 4 residues within 4Å: Chain A: D.376, H.380, H.535 Ligands: PO4.7 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.376, A:D.376, A:H.380, A:H.535 ZN.4: 6 residues within 4Å: Chain A: D.218, T.256, D.376, D.423, H.424 Ligands: PO4.7 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.218, A:D.218, A:T.256, A:D.423, A:H.424

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

NAG.5: 2 residues within 4Å: Chain A: N.285, P.463 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.285

1 x TZS: N-{[1-(6,7-dimethoxy-5,8-dihydroquinazolin-4-yl)piperidin-4-yl]methyl}sulfuric diamide(Non-covalent)

TZS.6: 16 residues within 4Å: Chain A: D.218, T.256, F.257, L.290, K.295, F.321, W.322, P.323, S.325, D.326, Y.340, Y.371, E.373, D.376, S.377 Ligands: PO4.7 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:T.256, A:Y.340 Hydrogen bonds: A:W.322, A:D.376, A:D.376, A:S.377 pi-Stacking: A:F.257, A:F.257, A:Y.340

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

PO4.7: 8 residues within 4Å: Chain A: T.256, N.277, D.376, H.380, H.535 Ligands: ZN.3, ZN.4, TZS.6 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.256, A:N.277, A:D.376 Salt bridges: A:H.535

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dennis, M.L. et al., Crystal structures of human ENPP1 in apo and bound forms. Acta Crystallogr D Struct Biol (2020)

Release Date

2020-09-09

Peptides

Ectonucleotide pyrophosphatase/phosphodiesterase family member 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
BbB

Ectonucleotide pyrophosphatase/phosphodiesterase family member 1

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