SMTL ID : 9iws.1

Cryo EM structure of human phosphate channel XPR1 in complex with IP7

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

4 x I7P: (1r,2R,3S,4s,5R,6S)-2,3,4,5,6-pentakis(phosphonooxy)cyclohexyl trihydrogen diphosphate(Non-covalent)

I7P.1: 11 residues within 4Å: Chain A: M.1, K.2, F.3, Y.30, R.157, K.158, K.161, K.162, K.165 Chain B: Q.212, R.219 19 PLIP interactions: 17 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:M.1, A:M.1, A:M.1, A:F.3, A:Y.30, B:R.219 Salt bridges: A:K.2, A:R.157, A:K.158, A:K.161, A:K.161, A:K.161, A:K.161, A:K.162, A:K.162, A:K.162, A:K.165, A:K.165, B:R.219 I7P.2: 6 residues within 4Å: Chain A: H.125, K.129, R.217, K.364, Y.368, K.369 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:R.217, A:Y.368 Salt bridges: A:K.129, A:K.129, A:K.129, A:K.132, A:K.364, A:K.364, A:K.369, A:K.369 I7P.3: 11 residues within 4Å: Chain A: Q.212, R.219 Chain B: M.1, K.2, F.3, Y.30, R.157, K.158, K.161, K.162, K.165 19 PLIP interactions: 17 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:M.1, B:M.1, B:M.1, B:F.3, B:Y.30, A:R.219 Salt bridges: B:K.2, B:R.157, B:K.158, B:K.161, B:K.161, B:K.161, B:K.161, B:K.162, B:K.162, B:K.162, B:K.165, B:K.165, A:R.219 I7P.4: 5 residues within 4Å: Chain B: H.125, K.129, R.217, K.364, Y.368 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:R.217, B:Y.368 Salt bridges: B:K.129, B:K.129, B:K.129, B:K.132, B:K.364, B:K.364

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lu, Y. et al., Structural basis for inositol pyrophosphate gating of the phosphate channel XPR1. Science (2024)

Release Date

2024-10-09

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