SMTL ID : 8zto.1

Cryo-EM structure of the human XPR1

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

2 x K9G: [(2~{R})-1-hexadecanoyloxy-3-[oxidanyl-[2-(trimethyl-$l^{4}-azanyl)ethoxy]phosphoryl]oxy-propan-2-yl] octadec-9-enoate(Non-covalent)

K9G.1: 25 residues within 4Å: Chain A: L.278, F.281, L.282, L.285, L.305, S.309, N.310, L.311, L.316, I.319, L.323, M.355, F.358, L.359, K.369, S.370, R.371, W.373, L.374, L.378, W.395, L.396, L.400, L.403, I.406 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:L.278, A:L.282, A:L.311, A:L.316, A:I.319, A:L.323, A:M.355, A:F.358, A:F.358, A:L.359, A:L.359, A:L.374, A:L.378, A:W.395, A:W.395, A:L.396, A:L.400, A:L.403, A:I.406 Hydrogen bonds: A:N.310 K9G.3: 25 residues within 4Å: Chain B: L.278, F.281, L.282, L.285, L.305, S.309, N.310, L.311, L.316, I.319, L.323, M.355, F.358, L.359, K.369, S.370, R.371, W.373, L.374, L.378, W.395, L.396, L.400, L.403, I.406 20 PLIP interactions: 20 interactions with chain B Hydrophobic interactions: B:L.278, B:L.282, B:L.311, B:L.316, B:I.319, B:L.323, B:M.355, B:F.358, B:F.358, B:L.359, B:L.359, B:L.374, B:L.378, B:W.395, B:W.395, B:L.396, B:L.400, B:L.403, B:I.406 Hydrogen bonds: B:N.310

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

PO4.2: 4 residues within 4Å: Chain A: R.270, Y.412, R.448, T.580 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.580 Salt bridges: A:R.270, A:R.448 PO4.4: 4 residues within 4Å: Chain B: R.270, Y.412, R.448, T.580 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.580 Salt bridges: B:R.270, B:R.448

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, L. et al., Structure and function of human XPR1 in phosphate export. Nat Commun (2025)

Release Date

2025-04-09

Peptides

Solute carrier family 53 member 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

We predict this structure to be a membrane protein.
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Solute carrier family 53 member 1