1U5T

Structure of the ESCRT-II endosomal trafficking complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.6 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.226 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure of ESCRT-II endosomal trafficking complex

Hierro, A.Sun, J.Rusnak, A.S.Kim, J.Prag, G.Emr, S.D.Hurley, J.H.

(2004) Nature 431: 221-225

  • DOI: 10.1038/nature02914
  • Also Cited By: 1W7P

  • PubMed Abstract: 
  • The multivesicular-body (MVB) pathway delivers transmembrane proteins and lipids to the lumen of the endosome. The multivesicular-body sorting pathway has crucial roles in growth-factor-receptor downregulation, developmental signalling, regulation of ...

    The multivesicular-body (MVB) pathway delivers transmembrane proteins and lipids to the lumen of the endosome. The multivesicular-body sorting pathway has crucial roles in growth-factor-receptor downregulation, developmental signalling, regulation of the immune response and the budding of certain enveloped viruses such as human immunodeficiency virus. Ubiquitination is a signal for sorting into the MVB pathway, which also requires the functions of three protein complexes, termed ESCRT-I, -II and -III (endosomal sorting complex required for transport). Here we report the crystal structure of the core of the yeast ESCRT-II complex, which contains one molecule of the Vps protein Vps22, the carboxy-terminal domain of Vps36 and two molecules of Vps25, and has the shape of a capital letter 'Y'. The amino-terminal coiled coil of Vps22 and the flexible linker leading to the ubiquitin-binding NZF domain of Vps36 both protrude from the tip of one branch of the 'Y'. Vps22 and Vps36 form nearly equivalent interactions with the two Vps25 molecules at the centre of the 'Y'. The structure suggests how ubiquitinated cargo could be passed between ESCRT components of the MVB pathway through the sequential transfer of ubiquitinated cargo from one complex to the next.


    Related Citations: 
    • ESCRT-II, an endosome-associated complex required for protein sorting: Crystal structure and interactions with ESCRT-III and membranes
      Teo, H.,Perisic, O.,Gonzalez, B.,Williams, R.L.
      (2004) DEV.CELL --: --


    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, Maryland 20892-0580, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
appears to be functionally related to SNF7; Snf8p
A
233Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: SNF8 (VPS22)
Find proteins for Q12483 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: SNF8
Go to UniProtKB:  Q12483
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Defective in vacuolar protein sorting; Vps36p
B
169Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: VPS36 (GRD12, VAC3, VPL11)
Find proteins for Q06696 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: VPS36
Go to UniProtKB:  Q06696
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Hypothetical 23.6 kDa protein in YUH1-URA8 intergenic region
C, D
202Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: VPS25 (VPT25)
Find proteins for P47142 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: VPS25
Go to UniProtKB:  P47142
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.6 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.226 
  • Space Group: P 43 2 2
Unit Cell:
Length (Å)Angle (°)
a = 150.040α = 90.00
b = 150.040β = 90.00
c = 185.760γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data collection
HKL-2000data reduction
SCALEPACKdata scaling
CNSrefinement
SOLVEphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2004-09-21
    Type: Initial release
  • Version 1.1: 2008-04-30
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance