9VSA | pdb_00009vsa

Structure of the wild-type CAX1 in Arabidopsis thaliana in the apo state

PDB DOI: https://doi.org/10.2210/pdb9VSA/pdb
EM Map EMD-65299: EMDB EMDataResource

Classification: TRANSPORT PROTEIN
Organism(s): Arabidopsis thaliana
Expression System: Homo sapiens
Mutation(s): No
Membrane Protein: Yes MemProtMD

Deposited: 2025-07-08 Released: 2025-09-03
Deposition Author(s): Sun, L., Wang, K.
Funding Organization(s): National Science Foundation (NSF, China)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.00 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

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This is version 1.0 of the entry. See complete history.

Literature

Structure of the wild-type CAX1 in Arabidopsis thaliana in the apo state

Sun, L., Wang, K.

To be published.

Macromolecule Content

Total Structure Weight: 153.63 kDa
Atom Count: 9,048
Modeled Residue Count: 1,182
Deposited Residue Count: 1,413
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Vacuolar cation/proton exchanger 1	A, B, C	471	Arabidopsis thaliana	Mutation(s): 0 Gene Names: CAX1, RCI4, At2g38170, F16M14.10 Membrane Entity: Yes
UniProt
Find proteins for Q39253 (Arabidopsis thaliana) Explore Q39253 Go to UniProtKB: Q39253
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q39253
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.00 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.13_2998:
RECONSTRUCTION	cryoSPARC

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2025-09-03

Deposition Author(s):

Funding Organization	Location	Grant Number
National Science Foundation (NSF, China)	China	--

Revision History (Full details and data files)

Version 1.0: 2025-09-03
Type: Initial release

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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.