SMTL ID : 9kcl.1

Cryo-EM structure of human sodium pump E1003K complexed with NDRG3 in (2Na+)E1-AMPPCP state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-mer

Ligands

2 x NA: SODIUM ION(Non-functional Binders)

NA.1: 4 residues within 4Å: Chain A: V.291, V.294, E.296, D.773 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.294, A:E.296 NA.2: 4 residues within 4Å: Chain A: A.292, S.744, N.745, E.748 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.744 Water bridges: A:N.745

1 x ACP: PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER(Non-covalent)

ACP.3: 20 residues within 4Å: Chain A: D.338, K.339, T.340, D.412, S.414, E.415, F.444, S.446, K.449, Q.451, K.470, G.471, A.472, R.513, V.514, L.515, T.579, G.580, D.581, R.654 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:D.338, A:D.338, A:T.340, A:T.340, A:D.412, A:S.414, A:E.415, A:R.513, A:R.513, A:T.579, A:G.580, A:G.580, A:D.581, A:D.581, A:D.581, A:R.654 Salt bridges: A:K.449 pi-Stacking: A:F.444, A:F.444

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dou, Y. et al., Structural basis of a sodium pump quaternary complex leading phospholipid scrambling in the living cell. To Be Published

Release Date

2025-11-12

Peptides

Sodium/potassium-transporting ATPase subunit alpha-1: A
Sodium/potassium-transporting ATPase subunit beta-3: B
Protein NDRG3: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
N

Membrane

We predict this structure to be a membrane protein.
Show / Hide

Sodium/potassium-transporting ATPase subunit alpha-1

Sodium/potassium-transporting ATPase subunit beta-3

Protein NDRG3

Related Entries With Identical Sequence