SMTL ID : 6weu.1 (1 other biounit)

Crystal structures of human E-NPP 1: bound to adenosine-5'-thio-monophosphate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

monomer

Ligands

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

NAG-NAG-MAN.1: 10 residues within 4Å: Chain A: L.267, S.271, H.500, K.503, P.583, N.584, N.585, D.804, R.806, H.894 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.503

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: 4 residues within 4Å: Chain A: N.341, S.343, V.344, P.345 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: SRA.8 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: SRA.8 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.218, A:T.256, A:D.423, A:H.424

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

NAG.5: 5 residues within 4Å: Chain A: Y.440, L.441, V.444, N.477, R.481 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.440, A:R.481, A:R.481 NAG.6: 2 residues within 4Å: Chain A: N.285, P.463 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:P.463 NAG.7: 1 residues within 4Å: Chain A: N.731 No protein-ligand interaction detected (PLIP)

1 x SRA: ADENOSINE -5'-THIO-MONOPHOSPHATE(Non-covalent)

SRA.8: 16 residues within 4Å: Chain A: D.218, T.256, F.257, N.277, L.290, K.295, W.322, P.323, Y.340, Y.371, E.373, D.376, H.380, H.535 Ligands: ZN.3, ZN.4 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:K.295, A:W.322, A:W.322, A:Y.340 pi-Stacking: A:F.257, A:Y.340, A:Y.340

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.9: 3 residues within 4Å: Chain A: H.493, D.800, F.801 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.800

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
AbA

Ectonucleotide pyrophosphatase/phosphodiesterase family member 1

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