Biological Assembly 1  

 3D View: Structure

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 16.21 kDa 
• Atom Count: 1128 
• Residue Count: 136 
• Unique protein chains: 2

2LUE

LC3B OPTN-LIR Ptot complex structure

• DOI: 10.2210/pdb2LUE/pdb
• BMRB: 18518

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


• Deposited: 2012-06-13 Released: 2013-07-17 
• Deposition Author(s): Rogov, V.V., Rozenknop, A., Loehr, F., Guentert, P., Doetsch, V.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Literature

Structural basis for phosphorylation-triggered autophagic clearance of Salmonella.

Rogov, V.V., Suzuki, H., Fiskin, E., Wild, P., Kniss, A., Rozenknop, A., Kato, R., Kawasaki, M., McEwan, D.G., Lohr, F., Guntert, P., Dikic, I., Wakatsuki, S., Dotsch, V.

(2013) Biochem J 

• PubMed: 23805866 
• DOI: 10.1042/BJ20121907
• Primary Citation of Related Structures:  
  2LUE, 3VTU, 3VTV, 3VTW


• PubMed Abstract: 
  

Selective autophagy is mediated by the interaction of autophagy modifiers and autophagy receptors that also bind to ubiquitinated cargo. Optineurin is an autophagy receptor that plays a role in the clearance of cytosolic Salmonella. The interaction between receptors and modifiers is often relatively weak, with typical values for the dissociation constant in the low micromolar range. The interaction of optineurin with autophagy modifiers is even weaker, but can be significantly enhanced through phosphorylation by the TBK1 {TANK [TRAF (tumour-necrosis-factor-receptor-associated factor)-associated nuclear factor κB activator]-binding kinase 1}. In the present study we describe the NMR and crystal structures of the autophagy modifier LC3B (microtubule-associated protein light chain 3 beta) in complex with the LC3 interaction region of optineurin either phosphorylated or bearing phospho-mimicking mutations. The structures show that the negative charge induced by phosphorylation is recognized by the side chains of Arg¹¹ and Lys⁵¹ in LC3B. Further mutational analysis suggests that the replacement of the canonical tryptophan residue side chain of autophagy receptors with the smaller phenylalanine side chain in optineurin significantly weakens its interaction with the autophagy modifier LC3B. Through phosphorylation of serine residues directly N-terminally located to the phenylalanine residue, the affinity is increased to the level normally seen for receptor-modifier interactions. Phosphorylation, therefore, acts as a switch for optineurin-based selective autophagy.

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Organizational Affiliation: 

Institute of Biophysical Chemistry and Center for Biomolecular Magnetic Resonance, Goethe University, Max-van-Laue Str. 9, 60438 Frankfurt am Main, Germany.

Macromolecules

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Optineurin	B	17	Homo sapiens	Mutation(s): 0  Gene Names: OPTN, FIP2, GLC1E, HIP7, HYPL, NRP
Find proteins for Q96CV9 (Homo sapiens) Explore Q96CV9  Go to UniProtKB:  Q96CV9
NIH Common Fund Data Resources
PHAROS  Q96CV9 GTEx  ENSG00000123240

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Microtubule-associated proteins 1A/1B light chain 3B	A	119	Homo sapiens	Mutation(s): 0  Gene Names: MAP1LC3B, MAP1ALC3
Find proteins for Q9GZQ8 (Homo sapiens) Explore Q9GZQ8  Go to UniProtKB:  Q9GZQ8
NIH Common Fund Data Resources
PHAROS  Q9GZQ8 GTEx  ENSG00000140941

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
SEP	B	L-PEPTIDE LINKING	C3 H8 N O6 P		SER

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 
• OLDERADO: 2LUE Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2012-06-13 
• Released Date: 2013-07-17 
Deposition Author(s): Rogov, V.V., Rozenknop, A., Loehr, F., Guentert, P., Doetsch, V.

Revision History 

• Version 1.0: 2013-07-17
  Type: Initial release