8YV6 | pdb_00008yv6

Crystal structure of LC3B in complex with Influenza A virus M2 peptide

• PDB DOI: https://doi.org/10.2210/pdb8YV6/pdb

• Classification: VIRUS
• Organism(s): Homo sapiens, Influenza A virus
• Expression System: Escherichia phage EcSzw-2
• Mutation(s): No 


• Deposited: 2024-03-28 Released: 2024-11-13 
• Deposition Author(s): Murata, D., Novoa, C., Beale, R., Akutsu, M.
• Funding Organization(s): The Francis Crick Institute

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free: 
  0.250 (Depositor), 0.250 (DCC) 
• R-Value Work: 
  0.210 (Depositor), 0.210 (DCC) 
• R-Value Observed: 
  0.212 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of LC3B in complex with Influenza A virus M2 peptide

Murata, D., Novoa, C., Beale, R., Akutsu, M.

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: 18.01 kDa 
• Atom Count: 1,094 
• Modeled Residue Count: 127 
• Deposited Residue Count: 153 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Microtubule-associated proteins 1A/1B light chain 3B	A	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
Matrix protein 2	B	28	Influenza A virus	Mutation(s): 0  Gene Names: M2
UniProt
Find proteins for A0A3S8TIH3 (Influenza A virus) Explore A0A3S8TIH3  Go to UniProtKB:  A0A3S8TIH3

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free:  0.250 (Depositor), 0.250 (DCC) 
• R-Value Work:  0.210 (Depositor), 0.210 (DCC) 
• R-Value Observed: 0.212 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 35.681	α = 90
b = 38.462	β = 90
c = 93.774	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
SCALA	data scaling
MOLREP	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-11-13 
Deposition Author(s): Murata, D., Novoa, C., Beale, R., Akutsu, M.

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Funding Organization	Location	Grant Number
The Francis Crick Institute	United Kingdom	--

Revision History  

• Version 1.0: 2024-11-13
  Type: Initial release