SMTL ID : 5v4k.1

Crystal structure of NEDD4 LIR-fused human LC3B_2-119

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 5 residues within 4Å: Chain A: Q.39, H.40, P.41, T.42, K.43 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.42, A:T.42, A:K.43 GOL.3: 10 residues within 4Å: Chain A: S.100, M.101, V.102, S.103, E.115 Chain B: S.100, M.101, V.102, S.103, E.115 7 PLIP interactions: 3 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:V.102, A:S.103, A:E.115, B:V.102, B:S.103, B:E.115, B:E.115

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

SO4.2: 3 residues within 4Å: Chain A: I.79, R.82, R.83 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.82, A:R.83 SO4.4: 5 residues within 4Å: Chain B: Q.39, H.40, P.41, T.42, K.43 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.42 Salt bridges: B:H.40, B:K.43

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Qiu, Y. et al., Insights into links between autophagy and the ubiquitin system from the structure of LC3B bound to the LIR motif from the E3 ligase NEDD4. Protein Sci. (2017)

Release Date

2017-05-17

Peptides

Microtubule-associated proteins 1A/1B light chain 3B,Microtubule-associated proteins 1A/1B light chain 3B,Microtubule-associated proteins 1A/1B light chain 3B: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Microtubule-associated proteins 1A/1B light chain 3B,Microtubule-associated proteins 1A/1B light chain 3B,Microtubule-associated proteins 1A/1B light chain 3B