3CUQ

Integrated structural and functional model of the human ESCRT-II complex

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.61 Å
  • R-Value Free: 0.298 
  • R-Value Work: 0.238 
  • R-Value Observed: 0.241 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history. 


Literature

Integrated structural model and membrane targeting mechanism of the human ESCRT-II complex

Im, Y.J., Hurley, J.H.

(2008) Dev Cell 14: 902-913

  • DOI: 10.1016/j.devcel.2008.04.004
  • Primary Citation of Related Structures:  
    2ZME, 3CUQ

  • PubMed Abstract: 

    • ESCRT-II plays a pivotal role in receptor downregulation and multivesicular body biogenesis and is conserved from yeast to humans. The crystal structures of two human ESCRT-II complex structures have been determined at 2.6 and 2.9 A resolution, respectively ...

    ESCRT-II plays a pivotal role in receptor downregulation and multivesicular body biogenesis and is conserved from yeast to humans. The crystal structures of two human ESCRT-II complex structures have been determined at 2.6 and 2.9 A resolution, respectively. The complex has three lobes and contains one copy each of VPS22 and VPS36 and two copies of VPS25. The structure reveals a dynamic helical domain to which both the VPS22 and VPS36 subunits contribute that connects the GLUE domain to the rest of the ESCRT-II core. Hydrodynamic analysis shows that intact ESCRT-II has a compact, closed conformation. ESCRT-II binds to the ESCRT-I VPS28 C-terminal domain subunit through a helix immediately C-terminal to the VPS36-GLUE domain. ESCRT-II is targeted to endosomal membranes by the lipid-binding activities of both the Vps36 GLUE domain and the first helix of Vps22. These data provide a unifying structural and functional framework for the ESCRT-II complex.

    Organizational Affiliation: 

    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, US Department of Health and Human Services, Bethesda, MD 20892, USA.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Vacuolar-sorting protein SNF8A234Homo sapiensMutation(s): 0 
Gene Names: SNF8, EAP30
UniProt & NIH Common Fund Data Resources
Find proteins for Q96H20 (Homo sapiens)
Explore Q96H20 
Go to UniProtKB:  Q96H20
PHAROS:  Q96H20
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ96H20
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Vacuolar protein-sorting-associated protein 36B218Homo sapiensMutation(s): 0 
Gene Names: VPS36, C13orf9, EAP45, CGI-145
UniProt & NIH Common Fund Data Resources
Find proteins for Q86VN1 (Homo sapiens)
Explore Q86VN1 
Go to UniProtKB:  Q86VN1
PHAROS:  Q86VN1
Entity Groups  
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UniProt GroupQ86VN1
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Vacuolar protein-sorting-associated protein 25C, D176Homo sapiensMutation(s): 0 
Gene Names: VPS25, DERP9, EAP20
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BRG1 (Homo sapiens)
Explore Q9BRG1 
Go to UniProtKB:  Q9BRG1
PHAROS:  Q9BRG1
Entity Groups  
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UniProt GroupQ9BRG1
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.61 Å
  • R-Value Free: 0.298 
  • R-Value Work: 0.238 
  • R-Value Observed: 0.241 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 70.162α = 90
b = 89.153β = 101.52
c = 91.437γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data collection
HKL-2000data reduction
HKL-2000data scaling
SOLVEphasing

Structure Validation

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Entry History 

Deposition Data

  • Deposited Date: 2008-04-16 
  • Released Date: 2008-11-04 
    • Deposition Author(s): Im, Y.J., Hurley, J.H.

Revision History  (Full details and data files)

  • Version 1.0: 2008-11-04
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Advisory, Refinement description, Version format compliance