8TGF

Crystal structure of cEPG5 LIR/LGG-1 complex

• PDB DOI: https://doi.org/10.2210/pdb8TGF/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Caenorhabditis elegans
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-07-12 Released: 2024-07-17 
• Deposition Author(s): Cheung, Y.W.S., Yip, C.K.
• Funding Organization(s): Canadian Institutes of Health Research (CIHR)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.213 
• R-Value Work: 0.174 
• R-Value Observed: 0.176 

Starting Model: experimental

Literature

Molecular basis of the mode of interaction between the tandem LC3-interacting region motif of the autophagy tethering factor EPG5 and ATG8 proteins

Cheung, Y.W.S., Fairlie, G., Scheu, K., Yip, C.K.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 16.27 kDa 
• Atom Count: 1,079 
• Modelled Residue Count: 119 
• Deposited Residue Count: 136 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein lgg-1	A	125	Caenorhabditis elegans	Mutation(s): 0  Gene Names: lgg-1, atg-8.1, C32D5.9
UniProt
Find proteins for Q09490 (Caenorhabditis elegans) Explore Q09490  Go to UniProtKB:  Q09490

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Ectopic P granules protein 5	B	11	Caenorhabditis elegans	Mutation(s): 0
UniProt
Find proteins for Q18892 (Caenorhabditis elegans) Explore Q18892  Go to UniProtKB:  Q18892

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ACT	C [auth A]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.213 
• R-Value Work: 0.174 
• R-Value Observed: 0.176 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 33.991	α = 90
b = 37.952	β = 100.102
c = 45.177	γ = 90

Software Package:

Software Name	Purpose
DIALS	data reduction
Aimless	data scaling
PHASER	phasing
PHENIX	refinement

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-07-17 
Deposition Author(s): Cheung, Y.W.S., Yip, C.K.

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Funding Organization	Location	Grant Number
Canadian Institutes of Health Research (CIHR)	Canada	--

Revision History  

• Version 1.0: 2024-07-17
  Type: Initial release