9VVG | pdb_00009vvg

Cryo-EM structure of the erlin1/2 complex purified using GDN and CHS


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 9VVG

This is version 1.1 of the entry. See complete history

Literature

The Erlin1/2 complex is a dynamic scaffold for membrane microdomain assembly on the endoplasmic reticulum.

Yan, L.Xu, Z.Yao, Y.Awang, T.Wang, X.Wang, Y.Ma, C.Li, N.Song, C.Chen, X.W.Gao, N.

(2026) Mol Cell 86: 1362-1376.e5

  • DOI: https://doi.org/10.1016/j.molcel.2026.03.001
  • Primary Citation Related Structures: 
    9VVG, 9VVJ

  • PubMed Abstract: 

    The SPFH (stomatin, prohibitin, flotillin, and HflK/C) family proteins are proposed scaffolds for organizing functional membrane microdomains (FMMs) on various cellular membranes. Erlin1 and Erlin2, two endoplasmic reticulum (ER)-residing SPFH members, as heteromeric complexes, participate in ER-associated protein degradation (ERAD). However, the mechanisms underlying Erlin-mediated FMM organization and ERAD regulation remain poorly understood. Here, through cryoelectron microscopy (cryo-EM), we find that the human Erlin1/2 complex forms a 26-mer cage assembly, defining a nanometer-sized microdomain on the luminal leaflet. The intramembrane region of each subunit constitutes a specific phosphatidylinositol-binding pocket. ER proteins can be recruited to both the interior and exterior of these cages. By caging cargoes, the Erlin1/2 complex physically secludes them from their substrates or binding partners, conferring another layer of regulation on their functions. Moreover, individual cages can cluster to organize FMMs of different sizes. These dynamic properties underscore a general regulatory role of Erlin1/2 in various ER-related biological processes, including coronaviral replication.


  • Organizational Affiliation
    • State Key Laboratory of Membrane Biology, School of Life Sciences, Peking University, Beijing 100871, China.

Macromolecule Content 

  • Total Structure Weight: 889.12 kDa 
  • Atom Count: 62,374 
  • Modeled Residue Count: 7,748 
  • Deposited Residue Count: 7,748 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Erlin-1297Homo sapiensMutation(s): 0 
Gene Names: ERLIN1C10orf69KE04KEO4SPFH1
UniProt & NIH Common Fund Data Resources
Find proteins for O75477 (Homo sapiens)
Explore O75477 
Go to UniProtKB:  O75477
PHAROS:  O75477
GTEx:  ENSG00000107566 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO75477
Glycosylation
Glycosylation Sites: 1Go to GlyGen: O75477-1
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Erlin-2299Homo sapiensMutation(s): 0 
Gene Names: ERLIN2C8orf2SPFH2UNQ2441/PRO5003/PRO9924
UniProt & NIH Common Fund Data Resources
Find proteins for O94905 (Homo sapiens)
Explore O94905 
Go to UniProtKB:  O94905
PHAROS:  O94905
GTEx:  ENSG00000147475 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO94905
Glycosylation
Glycosylation Sites: 1Go to GlyGen: O94905-1
Sequence Annotations
Expand
Reference Sequence

Oligosaccharides

Help  
Entity ID: 3
MoleculeChains Length2D Diagram GlycosylationD Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
AA [auth N],
BA [auth O],
CA [auth P],
DA [auth Q],
EA [auth R],
AA [auth N],
BA [auth O],
CA [auth P],
DA [auth Q],
EA [auth R],
FA [auth S],
GA [auth T],
HA [auth U],
IA [auth V],
JA [auth W],
KA [auth X],
LA [auth Y],
MA [auth Z],
NA [auth n],
OA [auth o],
PA [auth p],
QA [auth q],
RA [auth r],
SA [auth s],
TA [auth t],
UA [auth u],
VA [auth v],
WA [auth w],
XA [auth x],
YA [auth y],
ZA [auth z]
2N-Glycosylation
Glycosylation Resources
GlyTouCan: G42666HT
GlyCosmos: G42666HT
GlyGen: G42666HT

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.21.2_5419
RECONSTRUCTIONRELION

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China92354306

Revision History  (Full details and data files)

  • Version 1.0: 2026-03-25
    Type: Initial release
  • Version 1.1: 2026-04-22
    Changes: Data collection, Database references