SMTL ID : 9jxh.1

Cryo-EM structure of human XPR1 in complex with InsP8

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

4 x I8P: (1R,3S,4R,5S,6R)-2,4,5,6-tetrakis(phosphonooxy)cyclohexane-1,3-diyl bis[trihydrogen (diphosphate)](Non-covalent)

I8P.1: 7 residues within 4Å: Chain A: H.124, K.128, K.212, R.216, K.363, Y.367, K.368 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:K.212, A:R.216, A:Y.367 Salt bridges: A:H.124, A:K.128, A:K.128, A:K.128, A:K.212, A:K.363, A:K.363, A:K.368, A:K.368 I8P.2: 15 residues within 4Å: Chain A: K.1, F.2, A.3, Y.21, K.25, Y.29, R.156, K.157, K.160, K.161, K.164 Chain B: R.210, Q.211, M.214, R.218 31 PLIP interactions: 21 interactions with chain A, 10 interactions with chain B Hydrogen bonds: A:K.1, A:F.2, A:A.3, A:Y.29, A:R.156, B:Q.211, B:Q.211, B:M.214 Salt bridges: A:K.1, A:K.1, A:K.25, A:K.25, A:K.157, A:K.157, A:K.160, A:K.160, A:K.160, A:K.160, A:K.161, A:K.161, A:K.161, A:K.164, A:K.164, A:K.164, B:R.210, B:R.210, B:R.218, B:R.218, B:R.218 Water bridges: B:R.218, B:R.218 I8P.3: 15 residues within 4Å: Chain A: R.210, Q.211, M.214, R.218 Chain B: K.1, F.2, A.3, Y.21, K.25, Y.29, R.156, K.157, K.160, K.161, K.164 27 PLIP interactions: 8 interactions with chain A, 19 interactions with chain B Hydrogen bonds: A:Q.211, A:M.214, B:K.1, B:F.2, B:A.3, B:R.156 Water bridges: A:R.218 Salt bridges: A:R.210, A:R.210, A:R.218, A:R.218, A:R.218, B:K.1, B:K.1, B:K.25, B:K.157, B:K.157, B:K.160, B:K.160, B:K.160, B:K.160, B:K.161, B:K.161, B:K.161, B:K.164, B:K.164, B:K.164 I8P.4: 7 residues within 4Å: Chain B: H.124, K.128, K.212, R.216, K.363, Y.367, K.368 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:R.216, B:Y.367 Salt bridges: B:H.124, B:K.128, B:K.128, B:K.128, B:K.131, B:K.212, B:K.363, B:K.363, B:K.368, B:K.368

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, X. et al., Cryo-EM structure of human XPR1 in apo state. Mol.Cell (2025)

Release Date

2025-08-27

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