5ZM8

Crystal structure of ORP2-ORD in complex with PI(4,5)P2


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.216 
  • R-Value Observed: 0.218 

Starting Model: experimental
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Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history


Literature

ORP2 Delivers Cholesterol to the Plasma Membrane in Exchange for Phosphatidylinositol 4, 5-Bisphosphate (PI(4,5)P2).

Wang, H.Ma, Q.Qi, Y.Dong, J.Du, X.Rae, J.Wang, J.Wu, W.F.Brown, A.J.Parton, R.G.Wu, J.W.Yang, H.

(2019) Mol Cell 73: 458-473.e7

  • DOI: https://doi.org/10.1016/j.molcel.2018.11.014
  • Primary Citation of Related Structures:  
    5ZM8

  • PubMed Abstract: 

    Cholesterol is highly enriched at the plasma membrane (PM), and lipid transfer proteins may deliver cholesterol to the PM in a nonvesicular manner. Here, through a mini-screen, we identified the oxysterol binding protein (OSBP)-related protein 2 (ORP2) as a novel mediator of selective cholesterol delivery to the PM. Interestingly, ORP2-mediated enrichment of PM cholesterol was coupled with the removal of phosphatidylinositol 4, 5-bisphosphate (PI(4,5)P 2 ) from the PM. ORP2 overexpression or deficiency impacted the levels of PM cholesterol and PI(4,5)P 2 , and ORP2 efficiently transferred both cholesterol and PI(4,5)P 2 in vitro. We determined the structure of ORP2 in complex with PI(4,5)P 2 at 2.7 Å resolution. ORP2 formed a stable tetramer in the presence of PI(4,5)P 2 , and tetramerization was required for ORP2 to transfer PI(4,5)P 2 . Our results identify a novel pathway for cholesterol delivery to the PM and establish ORP2 as a key regulator of both cholesterol and PI(4,5)P 2 of the PM.


  • Organizational Affiliation

    Beijing Advanced Innovation Center for Structural Biology, MOE Key Laboratory for Protein Science, Tsinghua-Peking Center for Life Sciences, School of Life Sciences, Tsinghua University, Beijing 100084, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Oxysterol-binding protein-related protein 2
A, B
455Homo sapiensMutation(s): 0 
Gene Names: OSBPL2KIAA0772ORP2
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for Q9H1P3 (Homo sapiens)
Explore Q9H1P3 
Go to UniProtKB:  Q9H1P3
PHAROS:  Q9H1P3
GTEx:  ENSG00000130703 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9H1P3
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
IEP
Query on IEP

Download Ideal Coordinates CCD File 
C [auth A],
D [auth B]
[(2~{S})-1-octadecanoyloxy-3-[oxidanyl-[(1~{R},2~{R},3~{S},4~{S},5~{S},6~{S})-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propan-2-yl] icosa-5,8,11,14-tetraenoate
C47 H85 O19 P3
CNWINRVXAYPOMW-UWUKCHIJSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.216 
  • R-Value Observed: 0.218 
  • Space Group: I 4 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 156.16α = 90
b = 156.16β = 90
c = 199.221γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Ministry of Science and Technology (China)China2016YFA0502004

Revision History  (Full details and data files)

  • Version 1.0: 2019-01-02
    Type: Initial release
  • Version 1.1: 2019-02-20
    Changes: Data collection, Database references
  • Version 1.2: 2023-11-22
    Changes: Data collection, Database references, Refinement description