SMTL ID : 5lxh.2 (2 other biounits)

GABARAP-L1 ATG4B LIR Complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.58 Å

Oligo State

hetero-1-1-mer

Ligands

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 6 residues within 4Å: Chain A: D.51, K.52, R.53, K.54 Chain B: D.4 Ligands: SO4.3 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.53, A:K.54 Water bridges: A:K.52, A:K.52, A:R.53 Salt bridges: A:K.52, A:K.54 SO4.2: 3 residues within 4Å: Chain A: K.12, F.17, R.20 2 PLIP interactions: 2 interactions with chain A Water bridges: A:F.17 Salt bridges: A:R.20 SO4.3: 6 residues within 4Å: Chain A: Q.10, Y.11, D.14, H.15, K.54 Ligands: SO4.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.10 Water bridges: A:R.53 Salt bridges: A:H.15, A:K.54

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 8 residues within 4Å: Chain A: F.9, F.85, V.86, N.87, N.88, Y.112, V.113, A.114 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.87, A:N.88, A:N.88, A:Y.112 GOL.5: 5 residues within 4Å: Chain A: R.28, Y.101, E.102, H.105, Y.109 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.28, A:Y.101, A:H.105

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Skytte Rasmussen, M. et al., ATG4B contains a C-terminal LIR motif important for binding and efficient cleavage of mammalian orthologs of yeast Atg8. Autophagy (2017)

Release Date

2017-02-08

Peptides

Gamma-aminobutyric acid receptor-associated protein-like 1: A
Cysteine protease ATG4B: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
F

Gamma-aminobutyric acid receptor-associated protein-like 1

Cysteine protease ATG4B

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