4TQ0

Crystal structure of human ATG5-ATG16N69


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.697 Å
  • R-Value Free: 0.274 
  • R-Value Work: 0.203 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Insights into autophagosome maturation revealed by the structures of ATG5 with its interacting partners

Kim, J.H.Hong, S.B.Lee, J.K.Han, S.Roh, K.H.Lee, K.E.Kim, Y.K.Choi, E.J.Song, H.K.

(2015) Autophagy 11: 75-87

  • DOI: 10.4161/15548627.2014.984276
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Autophagy is a bulky catabolic process that responds to nutrient homeostasis and extracellular stress signals and is a conserved mechanism in all eukaryotes. When autophagy is induced, cellular components are sequestered within an autophagosome and f ...

    Autophagy is a bulky catabolic process that responds to nutrient homeostasis and extracellular stress signals and is a conserved mechanism in all eukaryotes. When autophagy is induced, cellular components are sequestered within an autophagosome and finally degraded by subsequent fusion with a lysosome. During this process, the ATG12-ATG5 conjugate requires 2 different binding partners, ATG16L1 for autophagosome elongation and TECPR1 for lysosomal fusion. In our current study, we describe the crystal structures of human ATG5 in complex with an N-terminal domain of ATG16L1 as well as an internal AIR domain of TECPR1. Both binding partners exhibit a similar α-helical structure containing a conserved binding motif termed AFIM. Furthermore, we characterize the critical role of the C-terminal unstructured region of the AIR domain of TECPR1. These findings are further confirmed by biochemical and cell biological analyses. These results provide new insights into the molecular details of the autophagosome maturation process, from its elongation to its fusion with a lysosome.


    Organizational Affiliation

    a Division of Life Sciences ; Korea University ; Seoul , Korea.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Autophagy protein 5
A, C, E
289Homo sapiensMutation(s): 0 
Gene Names: ATG5 (APG5L, ASP)
Find proteins for Q9H1Y0 (Homo sapiens)
Go to Gene View: ATG5
Go to UniProtKB:  Q9H1Y0
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Autophagy-related protein 16-1
B, D, F
69Homo sapiensMutation(s): 0 
Gene Names: ATG16L1 (APG16L)
Find proteins for Q676U5 (Homo sapiens)
Go to Gene View: ATG16L1
Go to UniProtKB:  Q676U5
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.697 Å
  • R-Value Free: 0.274 
  • R-Value Work: 0.203 
  • Space Group: P 41 21 2
Unit Cell:
Length (Å)Angle (°)
a = 93.094α = 90.00
b = 93.094β = 90.00
c = 245.577γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2015-03-11
    Type: Initial release