25GN | pdb_000025gn

receptor-arrestin

PDB DOI: https://doi.org/10.2210/pdb25GN/pdb
EM Map EMD-80088: EMDB EMDataResource

Classification: MEMBRANE PROTEIN
Organism(s): Homo sapiens
Expression System: Trichoplusia ni
Mutation(s): No

Deposited: 2026-04-02 Released: 2026-08-26
Deposition Author(s): Fei, X., Zhibin, Z.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.20 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 25GN

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

Literature

Direct beta-arrestin engagement by the non-canonical WNT receptor FZD6 via a shallow binding pocket

Zhang, Z.B., Lin, X., Li, M.R., Pan, Y.R., Kang, Q., Xu, F., Zhu, X.J.

(2026) Acta Pharmacol Sin

DOI: https://doi.org/10.1038/s41401-026-01902-w

Macromolecule Content

Total Structure Weight: 131.83 kDa
Atom Count: 6,853
Modeled Residue Count: 902
Deposited Residue Count: 1,163
Unique protein chains: 4

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Isoform 1B of Beta-arrestin-1	A [auth C]	410	Homo sapiens	Mutation(s): 0 Gene Names: ARRB1, ARR1
UniProt & NIH Common Fund Data Resources
Find proteins for P49407 (Homo sapiens) Go to UniProtKB: P49407
GTEx: ENSG00000137486
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P49407-2
Sequence Annotations Expand
Reference Sequence

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Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
heavy chain of scFv30	B [auth H]	121	Homo sapiens	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
Sequence Annotations Expand
Reference Sequence

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Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
light chain of scFv30	C [auth L]	108	Homo sapiens	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Frizzled-6	D [auth R]	524	Homo sapiens	Mutation(s): 0 Gene Names: FZD6
UniProt & NIH Common Fund Data Resources
Find proteins for O60353 (Homo sapiens) Explore O60353 Go to UniProtKB: O60353
GTEx: ENSG00000164930
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O60353
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 2 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
SEP Query on SEP	D [auth R]	L-PEPTIDE LINKING	C₃ H₈ N O₆ P		SER
TPO Query on TPO	D [auth R]	L-PEPTIDE LINKING	C₄ H₁₀ N O₆ P		THR

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.20 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21.2_5419
RECONSTRUCTION	cryoSPARC

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2026-08-26

Deposition Author(s):

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2026-08-26
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.