SMTL ID : 7jl0.1

Cryo-EM structure of MDA5-dsRNA in complex with TRIM65 PSpry domain (Monomer)

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain C: C.621, C.624, C.676, C.678 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.621, C:C.624, C:C.676, C:C.678

1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.2: 13 residues within 4Å: Chain C: Q.21, R.23, G.46, G.48, K.49, T.50, R.51, D.511, K.513, R.536, R.538 Ligands: ALF.3, MG.4 16 PLIP interactions: 16 interactions with chain C Hydrogen bonds: C:Q.21, C:Q.26, C:G.46, C:G.48, C:K.49, C:T.50, C:R.51, C:D.511, C:D.511, C:K.513, C:R.536, C:R.538 Salt bridges: C:K.49, C:R.538, C:R.538 pi-Cation interactions: C:R.51

1 x ALF: TETRAFLUOROALUMINATE ION(Non-covalent)

ALF.3: 8 residues within 4Å: Chain C: T.45, K.49, A.203, G.509, Q.532, R.536 Ligands: ADP.2, MG.4 No protein-ligand interaction detected (PLIP)

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 3 residues within 4Å: Chain C: D.157 Ligands: ADP.2, ALF.3 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kato, K. et al., Structural analysis of RIG-I-like receptors reveals ancient rules of engagement between diverse RNA helicases and TRIM ubiquitin ligases. Mol.Cell (2021)

Release Date

2020-12-09

Peptides

Interferon-induced helicase C domain-containing protein 1: C
Tripartite motif-containing protein 65: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

C
A

D
B

Interferon-induced helicase C domain-containing protein 1

Tripartite motif-containing protein 65

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