SMTL ID : 5ltk.1

Crystal structure of the Prp43-ADP-BeF3 complex (in hexagonal space group)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.24 Å

Oligo State

monomer

Ligands

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

ADP.1: 14 residues within 4Å: Chain A: L.38, G.64, S.65, G.66, K.67, T.68, T.69, R.104, T.216, T.331, R.377, T.378 Ligands: BEF.2, MG.3 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:G.64, A:G.64, A:S.65, A:G.66, A:K.67, A:T.68, A:T.68, A:T.69, A:T.216, A:T.331, A:R.377 Water bridges: A:K.67, A:T.68, A:E.161 Salt bridges: A:K.67, A:R.377, A:R.377 pi-Cation interactions: A:R.104, A:R.104

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

BEF.2: 10 residues within 4Å: Chain A: T.63, G.64, K.67, T.68, E.161, S.329, R.374, R.377 Ligands: ADP.1, MG.3 No protein-ligand interaction detected (PLIP)

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 4 residues within 4Å: Chain A: T.68, E.161 Ligands: ADP.1, BEF.2 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:T.68, H2O.1, H2O.1, H2O.1

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 6 residues within 4Å: Chain A: R.95, I.121, R.122, T.137, Q.140, R.143 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.122 Salt bridges: A:R.95, A:R.143 SO4.5: 6 residues within 4Å: Chain A: R.94, Y.290, G.291, T.323, N.324, I.325 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.291, A:N.324 Salt bridges: A:R.94

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tauchert, M.J. et al., Structural insights into the mechanism of the DEAH-box RNA helicase Prp43. Elife (2017)

Release Date

2017-01-25

Peptides

Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP43: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP43

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