2XS8

Crystal Structure of ALIX in complex with the SIVagmTan-1 AYDPARKLL Late Domain


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.498 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.204 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Identification and Structural Characterization of the Alix-Binding Late Domains of Sivmac239 and Sivagmtan-1.

Zhai, Q.Landesman, M.Robinson, H.Sundquist, W.I.Hill, C.P.

(2011) J.Virol. 85: 632

  • DOI: 10.1128/JVI.01683-10
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Retroviral Gag proteins contain short late-domain motifs that recruit cellular ESCRT pathway proteins to facilitate virus budding. ALIX-binding late domains often contain the core consensus sequence YPX(n)L (where X(n) can vary in sequence and length ...

    Retroviral Gag proteins contain short late-domain motifs that recruit cellular ESCRT pathway proteins to facilitate virus budding. ALIX-binding late domains often contain the core consensus sequence YPX(n)L (where X(n) can vary in sequence and length). However, some simian immunodeficiency virus (SIV) Gag proteins lack this consensus sequence, yet still bind ALIX. We mapped divergent, ALIX-binding late domains within the p6(Gag) proteins of SIV(mac239) ((40)SREKPYKEVTEDLLHLNSLF(59)) and SIV(agmTan-1) ((24)AAGAYDPARKLLEQYAKK(41)). Crystal structures revealed that anchoring tyrosines (in lightface) and nearby hydrophobic residues (underlined) contact the ALIX V domain, revealing how lentiviruses employ a diverse family of late-domain sequences to bind ALIX and promote virus budding.


    Organizational Affiliation

    Department of Biochemistry, University of Utah School of Medicine, 15 N. Medical Drive East, Room 4100, Salt Lake City, UT 84112-5650, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PROGRAMMED CELL DEATH 6-INTERACTING PROTEIN
A
704Homo sapiensMutation(s): 2 
Gene Names: PDCD6IP (AIP1, ALIX, KIAA1375)
Find proteins for Q8WUM4 (Homo sapiens)
Go to Gene View: PDCD6IP
Go to UniProtKB:  Q8WUM4
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
SIVAGMTAN-1 GAG P6
B
18Simian immunodeficiency virus agm.grivet (isolate AGM gr-1)Mutation(s): 0 
Gene Names: gag
Find proteins for Q02843 (Simian immunodeficiency virus agm.grivet (isolate AGM gr-1))
Go to UniProtKB:  Q02843
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.498 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.204 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 145.542α = 90.00
b = 99.076β = 106.87
c = 72.594γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
REFMACphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-11-03
    Type: Initial release
  • Version 1.1: 2011-05-08
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance