SMTL ID : 5v7v.1

Cryo-EM structure of ERAD-associated E3 ubiquitin-protein ligase component HRD3

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

monomer

Ligands

2 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.1: 6 residues within 4Å: Chain A: E.70, E.71, Y.74, N.123, T.125, L.126 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.71 NAG-NAG-BMA.2: 7 residues within 4Å: Chain A: R.31, E.104, Y.107, F.134, N.142, H.143, S.144 No protein-ligand interaction detected (PLIP)

3 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)(Post Translational Modification)

NAG.3: 3 residues within 4Å: Chain A: N.101, K.133, L.137 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:K.133 Hydrogen bonds: A:N.101, A:K.133 NAG.4: 2 residues within 4Å: Chain A: N.429, Q.432 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.429 NAG.5: 4 residues within 4Å: Chain A: M.609, Q.610, N.611, K.614 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Q.610 Hydrogen bonds: A:Q.610, A:N.611, A:K.614

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schoebel, S. et al., Cryo-EM structure of the protein-conducting ERAD channel Hrd1 in complex with Hrd3. Nature (2017)

Release Date

2017-08-16

Peptides

ERAD-associated E3 ubiquitin-protein ligase component HRD3: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

ERAD-associated E3 ubiquitin-protein ligase component HRD3