8J8Z | pdb_00008j8z

Structure of beta-arrestin1 in complex with D6Rpp

PDB DOI: https://doi.org/10.2210/pdb8J8Z/pdb
EM Map EMD-36082: EMDB EMDataResource

Classification: SYGNALING PROTEIN/IMMUNE SYSTEM
Organism(s): Rattus norvegicus, Mus musculus, Homo sapiens
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2023-05-02 Released: 2023-12-27
Deposition Author(s): Maharana, J., Sarma, P., Yadav, M.K., Chami, M., Banerjee, R., Shukla, A.K.
Funding Organization(s): Science and Engineering Research Board (SERB), Department of Biotechnology (DBT, India)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.40 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Molecular insights into atypical modes of beta-arrestin interaction with seven transmembrane receptors.

Maharana, J., Sano, F.K., Sarma, P., Yadav, M.K., Duan, L., Stepniewski, T.M., Chaturvedi, M., Ranjan, A., Singh, V., Saha, S., Mahajan, G., Chami, M., Shihoya, W., Selent, J., Chung, K.Y., Banerjee, R., Nureki, O., Shukla, A.K.

(2024) Science 383: 101-108

PubMed: 38175886 Search on PubMed Search on PubMed Central
DOI: https://doi.org/10.1126/science.adj3347
Primary Citation Related Structures:
8GO9, 8J8R, 8J8V, 8J8Z, 8J97, 8J9K, 8JA3, 8JAF

PubMed Abstract:
β-arrestins (βarrs) are multifunctional proteins involved in signaling and regulation of seven transmembrane receptors (7TMRs), and their interaction is driven primarily by agonist-induced receptor activation and phosphorylation. Here, we present seven cryo-electron microscopy structures of βarrs either in the basal state, activated by the muscarinic receptor subtype 2 (M2R) through its third intracellular loop, or activated by the βarr-biased decoy D6 receptor (D6R). Combined with biochemical, cellular, and biophysical experiments, these structural snapshots allow the visualization of atypical engagement of βarrs with 7TMRs and also reveal a structural transition in the carboxyl terminus of βarr2 from a β strand to an α helix upon activation by D6R. Our study provides previously unanticipated molecular insights into the structural and functional diversity encoded in 7TMR-βarr complexes with direct implications for exploring novel therapeutic avenues.

Organizational Affiliation

Department of Biological Sciences, Indian Institute of Technology Kanpur, Kanpur, India.

Macromolecule Content

Total Structure Weight: 196.78 kDa
Atom Count: 8,722
Modeled Residue Count: 1,142
Deposited Residue Count: 1,776
Unique protein chains: 4

Macromolecules

Find similar proteins by:

| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta-arrestin-1	A, E [auth B]	418	Rattus norvegicus	Mutation(s): 0 Gene Names: Arrb1
UniProt
Find proteins for P29066 (Rattus norvegicus) Explore P29066 Go to UniProtKB: P29066
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P29066
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Fab30 Heavy Chain	B [auth H], F [auth I]	237	Mus musculus	Mutation(s): 0

Find similar proteins by:

| 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Fab30 Light Chain	C [auth L], G [auth M]	215	Mus musculus	Mutation(s): 0

Find similar proteins by: Sequence | 3D Structure

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Atypical chemokine receptor 2	D [auth V], H [auth U]	18	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for O00590 (Homo sapiens) Explore O00590 Go to UniProtKB: O00590
PHAROS: O00590 GTEx: ENSG00000144648
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O00590
Sequence Annotations Expand
Reference Sequence

Small Molecules

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

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.40 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX
RECONSTRUCTION	cryoSPARC	3.3.1

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2023-12-27

Deposition Author(s):

Funding Organization	Location	Grant Number
Science and Engineering Research Board (SERB)	India	IPA/2020/000405
Department of Biotechnology (DBT, India)	India	IA/S/20/1/504916
Science and Engineering Research Board (SERB)	India	CRG/2022/002646
Science and Engineering Research Board (SERB)	India	SPR/2020/000408