SMTL ID : 6gkh.1

CryoEM structure of the MDA5-dsRNA filament in complex with ADP-AlF4

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

monomer

Ligands

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

ADP.1: 18 residues within 4Å: Chain A: Q.308, L.309, R.310, Q.313, T.332, G.333, S.334, G.335, K.336, T.337, R.338, E.377, D.779, K.781, R.804, R.806 Ligands: ALF.2, MG.3 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:L.309, A:R.310, A:R.310, A:Q.313, A:G.333, A:S.334, A:G.335, A:K.336, A:T.337, A:T.337, A:R.338 Salt bridges: A:K.336, A:R.806, A:R.806 pi-Cation interactions: A:R.310

1 x ALF: TETRAFLUOROALUMINATE ION(Non-covalent)

ALF.2: 11 residues within 4Å: Chain A: T.332, G.333, K.336, D.444, A.490, G.777, Q.800, R.804, R.806 Ligands: ADP.1, MG.3 No protein-ligand interaction detected (PLIP)

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 3 residues within 4Å: Chain A: D.444 Ligands: ADP.1, ALF.2 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.444

1 x ZN: ZINC ION(Non-covalent)

ZN.4: 7 residues within 4Å: Chain A: C.889, C.892, M.894, C.944, C.946, Q.948, W.950 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.889, A:C.892, A:C.944, A:C.946

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yu, Q. et al., Cryo-EM Structures of MDA5-dsRNA Filaments at Different Stages of ATP Hydrolysis. Mol. Cell (2018)

Release Date

2018-11-21

Peptides

Interferon-induced helicase C domain-containing protein 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Interferon-induced helicase C domain-containing protein 1

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