SMTL ID : 8s24.1

Structure of the E3 ubiquitin ligase RNF213, determined by cryoEM

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

monomer

Ligands

1 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.1: 18 residues within 4Å: Chain A: A.2034, G.2035, V.2036, G.2037, K.2038, S.2039, L.2040, E.2138, G.2193, M.2194, D.2195, E.2198, F.2204, W.2252, R.2256, K.2539, S.2614 Ligands: MG.2 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:G.2035, A:V.2036, A:G.2037, A:K.2038, A:S.2039, A:G.2193, A:D.2195, A:S.2614 Salt bridges: A:K.2038, A:K.2038, A:K.2539, A:K.2539 pi-Stacking: A:W.2252

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: S.2039, E.2138, K.2539 Ligands: ATP.1 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:S.2039, A:E.2138

1 x ZN: ZINC ION(Non-covalent)

ZN.3: 4 residues within 4Å: Chain A: C.4545, H.4549, D.4567, C.4568 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:C.4545, A:C.4568

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Crespillo-Casado, A. et al., Recognition of phylogenetically diverse pathogens through enzymatically amplified recruitment of RNF213. Embo Rep. (2024)

Release Date

2024-10-09

Peptides

E3 ubiquitin-protein ligase RNF213: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E3 ubiquitin-protein ligase RNF213