6M49

cryo-EM structure of Scap/Insig complex in the present of 25-hydroxyl cholesterol.


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

A structure of human Scap bound to Insig-2 suggests how their interaction is regulated by sterols.

Yan, R.Cao, P.Song, W.Qian, H.Du, X.Coates, H.W.Zhao, X.Li, Y.Gao, S.Gong, X.Liu, X.Sui, J.Lei, J.Yang, H.Brown, A.J.Zhou, Q.Yan, C.Yan, N.

(2021) Science 371

  • DOI: https://doi.org/10.1126/science.abb2224
  • Primary Citation of Related Structures:  
    6M49

  • PubMed Abstract: 

    The sterol regulatory element-binding protein (SREBP) pathway controls cellular homeostasis of sterols. The key players in this pathway, Scap and Insig-1 and -2, are membrane-embedded sterol sensors. The 25-hydroxycholesterol (25HC)-dependent association of Scap and Insig acts as the master switch for the SREBP pathway. Here, we present cryo-electron microscopy analysis of the human Scap and Insig-2 complex in the presence of 25HC, with the transmembrane (TM) domains determined at an average resolution of 3.7 angstrom. The sterol-sensing domain in Scap and all six TMs in Insig-2 were resolved. A 25HC molecule is sandwiched between the S4 to S6 segments in Scap and TMs 3 and 4 in Insig-2 in the luminal leaflet of the membrane. Unwinding of the middle of the Scap-S4 segment is crucial for 25HC binding and Insig association.


  • Organizational Affiliation

    Westlake Laboratory of Life Sciences and Biomedicine, Key Laboratory of Structural Biology of Zhejiang Province, School of Life Sciences, Westlake University, Hangzhou 310024, Zhejiang Province, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Insulin-induced gene 2 protein225Homo sapiensMutation(s): 3 
Gene Names: INSIG2
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for Q9Y5U4 (Homo sapiens)
Explore Q9Y5U4 
Go to UniProtKB:  Q9Y5U4
PHAROS:  Q9Y5U4
GTEx:  ENSG00000125629 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9Y5U4
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Sterol regulatory element-binding protein cleavage-activating protein,Sterol regulatory element-binding protein cleavage-activating protein572Homo sapiensMutation(s): 0 
Gene Names: SCAP
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for Q12770 (Homo sapiens)
Explore Q12770 
Go to UniProtKB:  Q12770
PHAROS:  Q12770
GTEx:  ENSG00000114650 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ12770
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
HC3 (Subject of Investigation/LOI)
Query on HC3

Download Ideal Coordinates CCD File 
C [auth A]25-HYDROXYCHOLESTEROL
C27 H46 O2
INBGSXNNRGWLJU-ZHHJOTBYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Ministry of Science and Technology (MoST, China)China--

Revision History  (Full details and data files)

  • Version 1.0: 2021-01-20
    Type: Initial release
  • Version 1.1: 2021-01-27
    Changes: Database references
  • Version 1.2: 2021-03-17
    Changes: Database references
  • Version 1.3: 2024-03-27
    Changes: Data collection, Database references