SMTL ID : 6faa.1

CRYSTAL STRUCTURE OF THE DEAH-BOX HELICASE PRP2 IN COMPLEX WITH ADP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.97 Å

Oligo State

monomer

Ligands

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

ADP.1: 15 residues within 4Å: Chain A: L.31, E.55, T.56, G.57, S.58, G.59, K.60, T.61, T.62, R.96, T.314, D.316, R.362 Ligands: MG.2, EOH.7 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:G.57, A:S.58, A:G.59, A:K.60, A:T.61, A:T.62, A:R.96, A:T.314, A:D.316 Water bridges: A:K.60, A:T.61, A:T.62, A:T.311, A:D.316, A:I.318 Salt bridges: A:K.60

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: T.61, D.152, S.312 Ligands: ADP.1 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:T.61, H2O.2, H2O.3, H2O.5, H2O.6

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 7 residues within 4Å: Chain A: T.248, G.249, Q.250, Y.280, S.281, T.306, K.328 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:Q.250, A:S.281, A:T.306, A:K.328 Water bridges: A:E.251, A:N.282, A:T.306, A:K.328 GOL.4: 6 residues within 4Å: Chain A: S.221, N.222, Y.223, L.224, E.252, R.255 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.223, A:E.252, A:E.252, A:R.255 GOL.5: 2 residues within 4Å: Chain A: D.38, D.42 No protein-ligand interaction detected (PLIP) GOL.6: 7 residues within 4Å: Chain A: R.114, F.115, T.454, E.455, L.458, V.478, V.549 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.114, A:R.114, A:E.455

1 x EOH: ETHANOL(Non-functional Binders)

EOH.7: 6 residues within 4Å: Chain A: T.62, V.93, R.96, L.313, T.314 Ligands: ADP.1 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:T.62, A:V.93 Hydrogen bonds: A:T.314, A:T.314

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schmitt, A. et al., Crystal structure of the spliceosomal DEAH-box ATPase Prp2. Acta Crystallogr D Struct Biol (2018)

Release Date

2018-07-11

Peptides

Putative mRNA splicing factor: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Putative mRNA splicing factor

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