SMTL ID : 7liu.1

DDX3X bound to ATP analog and remodeled RNA:DNA hybrid

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: T.99, D.215, E.216 Ligands: 08T.2 No protein-ligand interaction detected (PLIP) MG.3: 4 residues within 4Å: Chain B: T.99, D.215, E.216 Ligands: 08T.4 No protein-ligand interaction detected (PLIP)

2 x 08T: [[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-tris(fluoranyl)beryllium(Non-covalent)

08T.2: 20 residues within 4Å: Chain A: F.28, Y.68, R.70, P.71, T.72, Q.75, T.94, G.95, S.96, G.97, K.98, T.99, E.216, A.251, G.372, D.374, R.399, R.402, V.403 Ligands: MG.1 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:R.70, A:T.72, A:Q.75, A:G.95, A:S.96, A:G.97, A:K.98, A:T.99, A:T.99, A:D.374 Water bridges: A:Q.149 Salt bridges: A:K.98, A:R.402, A:R.402 pi-Stacking: A:Y.68, A:Y.68 08T.4: 20 residues within 4Å: Chain B: Y.68, R.70, P.71, T.72, Q.75, Q.93, T.94, G.95, S.96, G.97, K.98, T.99, E.216, A.251, G.372, D.374, R.399, R.402, V.403 Ligands: MG.3 18 PLIP interactions: 18 interactions with chain B Hydrogen bonds: B:Y.68, B:T.72, B:Q.75, B:Q.75, B:G.95, B:S.96, B:G.97, B:K.98, B:T.99, B:T.99, B:D.374 Water bridges: B:Q.149, B:Q.149 Salt bridges: B:K.98, B:R.402, B:R.402 pi-Stacking: B:Y.68, B:Y.68

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Enemark, E.J. et al., DDX3X bound to ATP analog and remodeled RNA:DNA hybrid. To Be Published

Release Date

2022-08-24

Peptides

ATP-dependent RNA helicase DDX3X: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

ATP-dependent RNA helicase DDX3X