SMTL ID : 6g4g.4 (3 other biounits)

Full length ectodomain of ectonucleotide phosphodiesterase/pyrophosphatase-3 (NPP3) including the SMB domains but with a partially disordered active site structure

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

monomer

Ligands

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

NAG-NAG.1: 5 residues within 4Å: Chain A: N.191, N.193, Y.353, R.365, I.367 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:I.367 NAG-NAG.2: 10 residues within 4Å: Chain A: L.173, S.177, H.405, P.487, N.488, N.489, D.712, G.713, H.714, L.800 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.712

1 x CA: CALCIUM ION(Non-covalent)

CA.3: 6 residues within 4Å: Chain A: D.708, N.710, D.712, H.714, F.715, D.716 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.708, A:D.712, A:H.714, A:D.716

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

NAG.4: 3 residues within 4Å: Chain A: Q.210, Y.218, N.236 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Q.210 Hydrogen bonds: A:Q.210, A:N.236 NAG.5: 3 residues within 4Å: Chain A: N.745, T.747, H.748 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dohler, C. et al., Crystallization of ectonucleotide phosphodiesterase/pyrophosphatase-3 and orientation of the SMB domains in the full-length ectodomain. Acta Crystallogr F Struct Biol Commun (2018)

Release Date

2018-11-07

Peptides

Ectonucleotide pyrophosphatase/phosphodiesterase family member 3: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

Ectonucleotide pyrophosphatase/phosphodiesterase family member 3

Related Entries With Identical Sequence