8V9D | pdb_00008v9d

Structure of human AQP4 with a pathogenic autoantibody - rAB 186

• PDB DOI: https://doi.org/10.2210/pdb8V9D/pdb
• EM Map EMD-43071: EMDB EMDataResource

• Classification: TRANSPORT PROTEIN/IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Komagataella pastoris, Homo sapiens
• Mutation(s): No 
• Membrane Protein: Yes  PDBTMMemProtMD


• Deposited: 2023-12-07 Released: 2024-12-11 
• Deposition Author(s): Gupta, M., Khandelwal, N.K., Stroud, R.M.
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.90 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Human AQP4 structure in lipid nanodisc using cryo-EM

Gupta, M., Khandelwal, N.K., Stroud, R.M.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 10-mer - A4B3C3 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 10-mer - A6B4 Local Symmetry: Cyclic - C4  (Explore in 3D)
Local Stoichiometry: Homo 4-mer - A4 

Local Symmetry: Cyclic - C4  (Explore in 3D)
Local Stoichiometry: Homo 4-mer - A4 

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 295.83 kDa 
• Atom Count: 16,683 
• Modeled Residue Count: 2,221 
• Deposited Residue Count: 2,736 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Aquaporin-4	A, D [auth B], G [auth C], J [auth D]	348	Homo sapiens	Mutation(s): 0  Gene Names: AQP4 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for P55087 (Homo sapiens) Explore P55087  Go to UniProtKB:  P55087
PHAROS:  P55087 GTEx:  ENSG00000171885

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
rAB 186 Heavy Chain	B [auth I], E [auth K], H [auth M]	233	Homo sapiens	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
rAB 186 Light Chain	C [auth J], F [auth L], I [auth N]	215	Homo sapiens	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.90 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-12-11 
Deposition Author(s): Gupta, M., Khandelwal, N.K., Stroud, R.M.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	--

Revision History  

• Version 1.0: 2024-12-11
  Type: Initial release
  
• Version 1.1: 2025-06-04
  Changes: Data collection