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Crystal structure of the Legionella pneumophila effector protein RavZ in complex with human LC3B

X-ray diffraction
2.47Å resolution
PDB entry 5ms2 coloured by chain, front view.
PDB entry 5ms2 coloured by chain, side view.
PDB entry 5ms2 coloured by chain, top view.
Source organisms:
Assembly composition:
hetero dimer (preferred)
Entry contents: 2 distinct polypeptide molecules

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Assemblies

Assembly 1 (preferred)
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Assembly Name: Cysteine protease RavZ and Microtubule-associated protein 1 light chain 3 beta
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Multimeric state: hetero dimer
Accessible surface area: 26783.04 Å2
Buried surface area: 601.7 Å2
Dissociation area: 300.85 Å2
Dissociation energy (ΔGdiss): -8.4 kcal/mol
Dissociation entropy (TΔSdiss): 11.88 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-178656

Macromolecules

Cysteine protease RavZ
Chain: A
Length: 433 amino acids
Theoretical weight: 48.52 KDa
Source organism: Legionella pneumophila subsp. pneumophila str. Philadelphia 1
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q5ZUV9 (Residues: 1-431; Coverage: 86%)
Gene names: lpg1683, ravZ
Pfam: RavZ C-terminal PI3P-binding domain
Cysteine protease RavZ in PDB entry 5ms2, assembly 1, front view.
Cysteine protease RavZ in PDB entry 5ms2, assembly 1, side view.
Cysteine protease RavZ in PDB entry 5ms2, assembly 1, top view.
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Microtubule-associated protein 1 light chain 3 beta
Chain: B
Length: 124 amino acids
Theoretical weight: 14.58 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q9GZQ8 (Residues: 1-119; Coverage: 95%)
Gene names: MAP1ALC3, MAP1LC3B
Pfam: Autophagy protein Atg8 ubiquitin like
InterPro:
CATH: Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1
Microtubule-associated proteins 1A/1B light chain 3B in PDB entry 5ms2, assembly 1, front view.
Microtubule-associated proteins 1A/1B light chain 3B in PDB entry 5ms2, assembly 1, side view.
Microtubule-associated proteins 1A/1B light chain 3B in PDB entry 5ms2, assembly 1, top view.
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