SMTL ID : 7fjp.1

Cryo EM structure of lysosomal ATPase

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

monomer

Ligands

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

PO4.1: 10 residues within 4Å: Chain A: D.512, K.513, T.514, T.722, K.827, D.846, N.849, D.850 Ligands: ADP.2, MG.3 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.514, A:T.514, A:N.849 Salt bridges: A:K.827

1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.2: 18 residues within 4Å: Chain A: T.514, D.570, M.572, D.573, F.602, S.604, Q.607, K.626, G.627, R.658, V.660, T.722, G.723, D.724, R.821, N.849 Ligands: PO4.1, MG.4 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:T.514, A:D.573, A:R.658, A:T.722, A:G.723, A:G.723, A:R.821, A:R.821, A:N.849 Salt bridges: A:R.658 pi-Stacking: A:F.602, A:F.602

2 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.3: 4 residues within 4Å: Chain A: D.512, T.514, D.846 Ligands: PO4.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:T.514 MG.4: 1 residues within 4Å: Ligands: ADP.2 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, X. et al., Cryo-EM structures and transport mechanism of human P5B type ATPase ATP13A2. Cell Discov (2021)

Release Date

2023-03-08

Peptides

Polyamine-transporting ATPase 13A2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Membrane

We predict this structure to be a membrane protein.
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Polyamine-transporting ATPase 13A2