SMTL ID : 9iv8.1

Cryo-EM structure of human NCX1 in PIP2 diC8 bound state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 3.50 Å

Oligo State

monomer

Ligands

5 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: I.221, I.225, S.226, V.229, E.234 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:I.221, A:I.225, A:S.226, A:E.234, A:E.234 CA.3: 3 residues within 4Å: Chain A: D.431, E.461, E.464 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.431, A:E.461, A:E.464, A:E.464 CA.4: 4 residues within 4Å: Chain A: E.395, D.431, E.461 Ligands: CA.6 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.395, A:D.431, A:D.431, A:E.461 CA.5: 6 residues within 4Å: Chain A: E.395, D.456, D.457, D.509, D.510, R.542 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.395, A:D.456, A:D.510 CA.6: 7 residues within 4Å: Chain A: E.395, D.457, I.459, E.461, D.508, D.510 Ligands: CA.4 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.395, A:E.395, A:D.457, A:I.459, A:D.510

1 x PIO: [(2R)-2-octanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate(Non-covalent)

PIO.2: 9 residues within 4Å: Chain A: K.199, H.200, L.201, R.202, V.203, V.206, R.255, L.256, K.260 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:H.200, A:H.200, A:R.202, A:V.203 Salt bridges: A:K.199, A:K.199, A:H.200, A:R.255, A:R.255, A:K.260

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xue, J. et al., Structural mechanisms of human cardiac sodium calcium exchanger NCX1. To Be Published

Release Date

2025-03-19

Peptides

Sodium/calcium exchanger 1: 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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Sodium/calcium exchanger 1

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