8Q7K

IRGQ LIR2 peptide in complex with LC3B

• PDB DOI: https://doi.org/10.2210/pdb8Q7K/pdb

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


• Deposited: 2023-08-16 Released: 2024-08-28 
• Deposition Author(s): Misra, M., Bailey, H.J., Pomirska, J., Dikic, I.
• Funding Organization(s): German Research Foundation (DFG)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.213 
• R-Value Work: 0.192 
• R-Value Observed: 0.193 

Starting Model: experimental

Literature

Tumor immune evasion through IRGQ-directed autophagy

Herhaus, L., Gestal-Mato, U., Eapen, V.V., Macinkovic, I., Bailey, H.J., Prieto-Garcia, C., Misra, M., Jacomin, A., Covarrubias-Pinto, A., Bagaric, I., Vollrath, J., Bhaskara, R.M., Husnjak, K., Zoellner, J., Gikandi, A., Heden van Noort, G.J., Langer, J., Weigert, A., Harper, J.W., Mancias, J.D., Dikic, I.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: immunoprecipitation

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 31.78 kDa 
• Atom Count: 2,318 
• Modelled Residue Count: 250 
• Deposited Residue Count: 268 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Microtubule-associated proteins 1A/1B light chain 3B	A, B	125	Homo sapiens	Mutation(s): 0  Gene Names: MAP1LC3B, MAP1ALC3
UniProt & NIH Common Fund Data Resources
Find proteins for Q9GZQ8 (Homo sapiens) Explore Q9GZQ8  Go to UniProtKB:  Q9GZQ8
PHAROS:  Q9GZQ8 GTEx:  ENSG00000140941

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Immunity-related GTPase family Q protein	C, D	9	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q8WZA9 (Homo sapiens) Explore Q8WZA9  Go to UniProtKB:  Q8WZA9
PHAROS:  Q8WZA9 GTEx:  ENSG00000167378

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO (Subject of Investigation/LOI)	E [auth B]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.213 
• R-Value Work: 0.192 
• R-Value Observed: 0.193 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 68.423	α = 90
b = 68.423	β = 90
c = 118.071	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-08-28 
Deposition Author(s): Misra, M., Bailey, H.J., Pomirska, J., Dikic, I.

---

Funding Organization	Location	Grant Number
German Research Foundation (DFG)	Germany	259130777

Revision History  

• Version 1.0: 2024-08-28
  Type: Initial release