Biological Assembly 1  

 3D View: Structure | Electron Density

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Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 80833.84 
• Atom Count: 5559 
• Residue Count: 722 
• Unique protein chains: 2

2XS8

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

• DOI: 10.2210/pdb2XS8/pdb

• Classification: PROTEIN TRANSPORT/VIRAL PROTEIN
• Organism(s): Simian immunodeficiency virus agm.grivet (isolate AGM gr-1), Homo sapiens
• Expression System: Escherichia coli BL21
• Mutation(s): 2 


• Deposited: 2010-09-24 Released: 2010-11-03 
• Deposition Author(s): Zhai, Q., Landesman, M., Robinson, H., Sundquist, W.I., Hill, C.P.

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Experimental Data Snapshot

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

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

• PubMed: 20962096 
• DOI: 10.1128/JVI.01683-10
• Primary Citation of Related Structures:  
  2XS1


• 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). 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.

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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
Molecule	Chains	Sequence Length	Organism	Details
PROGRAMMED CELL DEATH 6-INTERACTING PROTEIN	A	704	Homo sapiens	Mutation(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
Molecule	Chains	Sequence Length	Organism	Details
SIVAGMTAN-1 GAG P6	B	18	Simian 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 = 145.542	α = 90.00
b = 99.076	β = 106.87
c = 72.594	γ = 90.00

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
REFMAC	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2010-09-24 
• Released Date: 2010-11-03 
• Deposition Author(s): Zhai, Q., Landesman, M., Robinson, H., Sundquist, W.I., Hill, C.P.

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