SMTL ID : 5yj9.1

Crystal structure of Tribolium castaneum PINK1 kinase domain in complex with AMP-PNP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.53 Å

Oligo State

monomer

Ligands

1 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.1: 15 residues within 4Å: Chain A: A.22, A.47, K.49, E.70, M.147, K.148, R.149, Y.150, N.153, D.194, N.195, L.197, D.212 Ligands: MG.2, MG.3 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:K.49, A:K.148, A:Y.150, A:N.153, A:D.194, A:D.212 Water bridges: A:D.190, A:K.192, A:N.195 Salt bridges: A:K.49

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: E.70, D.212 Ligands: ANP.1 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.70, A:D.212, A:D.212, H2O.1 MG.3: 3 residues within 4Å: Chain A: N.195, D.212 Ligands: ANP.1 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.212, H2O.1, H2O.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Okatsu, K. et al., Structural insights into ubiquitin phosphorylation by PINK1. Sci Rep (2018)

Release Date

2018-07-25

Peptides

Serine/threonine-protein kinase PINK1, mitochondrial-like Protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

Serine/threonine-protein kinase PINK1, mitochondrial-like Protein