SMTL ID : 7vpl.1

Cryo-EM structure of the human ATP13A2 (SPM-bound E2Pi state)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 3.78 Å

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: 3 residues within 4Å: Chain A: N.1037, T.1039, V.1040 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.1040 Hydrogen bonds: A:T.1039

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: D.517, T.519, D.882 Ligands: ALF.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.517, A:T.519, A:D.882

1 x ALF: TETRAFLUOROALUMINATE ION(Non-covalent)

ALF.3: 11 residues within 4Å: Chain A: T.350, G.351, E.352, D.517, K.518, T.519, T.754, G.755, K.863, N.885 Ligands: MG.2 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.517

1 x SPM: SPERMINE(Non-covalent)

SPM.4: 11 residues within 4Å: Chain A: W.255, D.258, Y.260, R.464, D.467, V.471, Y.944, Q.948, D.964, F.967, D.971 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.967 Hydrogen bonds: A:D.258, A:D.258, A:D.467, A:Y.944, A:Q.948

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tomita, A. et al., Cryo-EM reveals mechanistic insights into lipid-facilitated polyamine export by human ATP13A2. Mol.Cell (2021)

Release Date

2021-12-29

Peptides

Polyamine-transporting ATPase 13A2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

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

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