SMTL ID : 8sl1.1

Cryo-EM structure of PAPP-A2

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

monomer

Ligands

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.1: 4 residues within 4Å: Chain A: W.283, R.286, Y.327, N.328 No protein-ligand interaction detected (PLIP)

1 x ZN: ZINC ION(Non-covalent)

ZN.2: 3 residues within 4Å: Chain A: H.499, H.503, H.509 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.499, A:H.503, A:H.509, H2O.1

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

NAG.3: 4 residues within 4Å: Chain A: N.445, H.448, F.449, S.643 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.445

2 x CA: CALCIUM ION(Non-covalent)

CA.4: 4 residues within 4Å: Chain A: E.679, D.685, Q.695, D.798 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.679, A:D.685, A:Q.695, A:D.798, A:D.798 CA.5: 6 residues within 4Å: Chain A: Y.880, C.881, D.883, K.885, E.892, D.895 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:Y.880, A:D.883, A:E.892, A:E.892, A:D.895

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sridar, J. et al., Cryo-EM structure of human PAPP-A2 and mechanism of substrate recognition. Commun Chem (2023)

Release Date

2023-11-08

Peptides

Pappalysin-2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Pappalysin-2