SMTL ID : 6tqb.1

X-ray structure of Roquin ROQ domain in complex with a UCP3 CDE1 SL RNA motif

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

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

EDO.1: 7 residues within 4Å: Chain A: A.145, M.146, L.150, R.151, I.152, W.157 Ligands: CL.6 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.150, A:I.152 EDO.2: 1 residues within 4Å: Chain A: P.154 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.172 EDO.3: 7 residues within 4Å: Chain A: L.49, G.50, P.51, A.52, M.53, F.88, Q.90 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.50, A:A.52, A:M.53 Water bridges: A:Q.90 EDO.4: 4 residues within 4Å: Chain A: R.114, D.115, E.116 Chain B: U.9 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.116 EDO.7: 2 residues within 4Å: Chain B: U.6, U.7 No protein-ligand interaction detected (PLIP) EDO.8: 3 residues within 4Å: Chain B: A.10, U.12, A.13 No protein-ligand interaction detected (PLIP)

2 x NA: SODIUM ION(Non-functional Binders)

NA.5: 5 residues within 4Å: Chain A: Y.104, S.107, C.108, F.109 Chain B: U.11 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.107, A:C.108, A:F.109, A:F.109 NA.10: 2 residues within 4Å: Chain B: U.12, A.13 No protein-ligand interaction detected (PLIP)

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.6: 1 residues within 4Å: Ligands: EDO.1 Ligand excluded by PLIP CL.11: 2 residues within 4Å: Chain B: A.4, A.5 Ligand excluded by PLIP

1 x MG: MAGNESIUM ION(Non-functional Binders)

MG.9: 3 residues within 4Å: Chain B: A.5, U.6, U.15 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Binas, O. et al., Structural basis for the recognition of transiently structured AU-rich elements by Roquin. Nucleic Acids Res. (2020)

Release Date

2020-05-27

Peptides

Roquin-1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Roquin-1

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