8PVR

Cryo-EM structure of horse Nhe9 bound to PI(3,5)P2

• PDB DOI: https://doi.org/10.2210/pdb8PVR/pdb
• EM Map EMD-17971: EMDB EMDataResource

• Classification: TRANSPORT PROTEIN
• Organism(s): Equus caballus
• Expression System: Saccharomyces cerevisiae
• Mutation(s): Yes 
• Membrane Protein: Yes  PDBTM


• Deposited: 2023-07-18 Released: 2024-07-24 
• Deposition Author(s): Kokane, S., Meier, P., Gulati, A., Delemotte, L., Drew, D.
• Funding Organization(s): European Research Council (ERC)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.06 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

PIP2 mediated oligomerization of the endosomal sodium/proton exchanger NHE9

Kokane, S., Meier, P., Gulati, A., Matsuoka, R., Pipatpolkai, T., Delemotte, L., Drew, D.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by (software)

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 131.21 kDa 
• Atom Count: 8,188 
• Modelled Residue Count: 1,018 
• Deposited Residue Count: 1,148 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Sodium/hydrogen exchanger 9	A [auth B], B [auth A]	574	Equus caballus	Mutation(s): 2  Gene Names: SLC9A9, NHE9 Membrane Entity: Yes
UniProt
Find proteins for F7B113 (Equus caballus) Explore F7B113  Go to UniProtKB:  F7B113

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EUJ (Subject of Investigation/LOI)	C [auth B], D [auth A]	(2R)-3-{[(S)-hydroxy{[(1S,2R,3R,4S,5S,6R)-2,4,6-trihydroxy-3,5-bis(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}propane-1,2-diyl dioctanoate C25 H49 O19 P3 QXHVLVSULWMTCV-DICZBTHZSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.06 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-07-24 
Deposition Author(s): Kokane, S., Meier, P., Gulati, A., Delemotte, L., Drew, D.

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Funding Organization	Location	Grant Number
European Research Council (ERC)	European Union	CoG-820187

Revision History  

• Version 1.0: 2024-07-24
  Type: Initial release