SMTL ID : 5e3h.1

Structural Basis for RNA Recognition and Activation of RIG-I

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.580, C.583, C.634, C.639 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.580, A:C.583, A:C.634, A:C.639

3 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain A: I.107, N.111 No protein-ligand interaction detected (PLIP) MG.3: 3 residues within 4Å: Chain A: D.142 Ligands: ADP.6, BEF.7 No protein-ligand interaction detected (PLIP) MG.4: 2 residues within 4Å: Chain A: N.68, H.151 No protein-ligand interaction detected (PLIP)

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 5 residues within 4Å: Chain A: G.27, N.29, L.172, P.173, Q.174 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.27, A:L.172, A:Q.174

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

ADP.6: 15 residues within 4Å: Chain A: F.11, K.12, R.14, Q.17, P.35, T.36, G.37, C.38, G.39, K.40, T.41, F.42, D.475 Ligands: MG.3, BEF.7 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:K.12, A:R.14, A:Q.17, A:G.37, A:C.38, A:G.39, A:K.40, A:T.41, A:T.41, A:T.41, A:D.475 Salt bridges: A:K.40 pi-Stacking: A:F.11 pi-Cation interactions: A:R.14

1 x BEF: BERYLLIUM TRIFLUORIDE ION(Non-covalent)

BEF.7: 7 residues within 4Å: Chain A: T.36, K.40, E.143, A.180, E.472 Ligands: MG.3, ADP.6 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jiang, F. et al., Structural basis of RNA recognition and activation by innate immune receptor RIG-I. Nature (2011)

Release Date

2015-11-18

Peptides

Probable ATP-dependent RNA helicase DDX58: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Probable ATP-dependent RNA helicase DDX58

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