SMTL ID : 5jaj.1

Structure of chicken LGP2 witha 5'p 10-mer dsRNA and ADP-AlF4-Mg.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.561, C.564, C.617, C.620 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.561, A:C.564, A:C.617, A:C.620

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

ADP.2: 18 residues within 4Å: Chain A: E.9, L.10, H.11, Q.14, P.32, T.33, G.34, A.35, G.36, K.37, T.38, R.39, E.74, D.451, R.478 Ligands: ALF.3, MG.4, EDO.5 23 PLIP interactions: 23 interactions with chain A Hydrogen bonds: A:E.9, A:H.11, A:Q.14, A:G.34, A:A.35, A:G.36, A:K.37, A:T.38, A:T.38, A:R.39, A:R.39, A:E.74, A:D.451 Water bridges: A:T.38, A:R.39, A:R.39, A:G.449, A:Q.472 Salt bridges: A:K.37, A:R.478, A:R.478 pi-Cation interactions: A:R.39, A:R.39

1 x ALF: TETRAFLUOROALUMINATE ION(Non-covalent)

ALF.3: 10 residues within 4Å: Chain A: T.33, G.34, K.37, E.139, A.175, G.449, R.476, R.478 Ligands: ADP.2, MG.4 No protein-ligand interaction detected (PLIP)

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 4 residues within 4Å: Chain A: T.38, E.139 Ligands: ADP.2, ALF.3 No protein-ligand interaction detected (PLIP)

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 6 residues within 4Å: Chain A: T.38, Q.69, H.70, E.74, D.451 Ligands: ADP.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.69, A:H.70, A:D.451 EDO.6: 5 residues within 4Å: Chain A: K.145, N.150, K.151, L.154, W.538 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.145, A:N.150, A:W.538 EDO.7: 6 residues within 4Å: Chain A: E.202, V.203, I.204, V.515, Q.516, Y.523 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.204, A:I.204, A:M.518

1 x MGF: TRIFLUOROMAGNESATE(Non-covalent)

MGF.8: 4 residues within 4Å: Chain A: K.63 Chain B: G.6 Chain C: G.6, U.7 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Uchikawa, E. et al., Structural Analysis of dsRNA Binding to Anti-viral Pattern Recognition Receptors LGP2 and MDA5. Mol.Cell (2016)

Release Date

2016-06-01

Peptides

LGP2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

LGP2