Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Macromolecule Content

• Total Structure Weight: 38.88 kDa 
• Atom Count: 2615 
• Modelled Residue Count: 290 
• Deposited Residue Count: 328 
• Unique protein chains: 2

4TQ1

Crystal structure of human ATG5-TECAIR

• PDB DOI: 10.2210/pdb4TQ1/pdb

• Classification: PROTEIN BINDING
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2014-06-10 Released: 2015-03-11 
• Deposition Author(s): Kim, J.H., Hong, S.B., Song, H.K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.222 
• R-Value Work: 0.178 
• R-Value Observed: 0.181 

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

• PubMed: 25484072 
• DOI: 10.4161/15548627.2014.984276
• Primary Citation of Related Structures:  
  4TQ0, 4TQ1


• 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 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.

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Organizational Affiliation: 

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

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Autophagy protein 5	A	289	Homo sapiens	Mutation(s): 0  Gene Names: ATG5, APG5L, ASP
UniProt & NIH Common Fund Data Resources
Find proteins for Q9H1Y0 (Homo sapiens) Explore Q9H1Y0  Go to UniProtKB:  Q9H1Y0
PHAROS:  Q9H1Y0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Tectonin beta-propeller repeat-containing protein 1	B	39	Homo sapiens	Mutation(s): 0  Gene Names: TECPR1, KIAA1358
UniProt & NIH Common Fund Data Resources
Find proteins for Q7Z6L1 (Homo sapiens) Explore Q7Z6L1  Go to UniProtKB:  Q7Z6L1
PHAROS:  Q7Z6L1

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.222 
• R-Value Work: 0.178 
• R-Value Observed: 0.181 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 43.618	α = 90
b = 71.919	β = 90
c = 96.354	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2014-06-10 
• Released Date: 2015-03-11 
Deposition Author(s): Kim, J.H., Hong, S.B., Song, H.K.

Revision History  

• Version 1.0: 2015-03-11
  Type: Initial release
  
• Version 1.1: 2020-01-29
  Changes: Data collection, Derived calculations, Source and taxonomy