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 PDBTM MemProtMD

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)

Experimental Data Snapshot

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

wwPDB Validation 3D Report Full Report

Validation slider image for 8V9D

This is version 1.1 of the entry. See complete history.

Literature

Human AQP4 structure in lipid nanodisc using cryo-EM

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

To be published.

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

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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 Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P55087
Sequence Annotations Expand
Reference Sequence

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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

Find similar proteins by:

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

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2024-12-11

Deposition Author(s):

Khandelwal, N.K.

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

Revision History (Full details and data files)

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

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.