SMTL ID : 6qv3.1

Crystal structure of the Ski2 RNA-helicase Brr2 from Chaetomium thermophilum bound to ADP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

monomer

Ligands

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

ADP.1: 14 residues within 4Å: Chain A: T.58, T.60, L.61, N.62, Q.65, T.85, G.86, S.87, G.88, K.89, T.90, N.91, N.402 Ligands: MN.5 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:T.58, A:T.60, A:Q.65, A:G.86, A:S.87, A:G.88, A:K.89, A:T.90, A:T.90, A:N.402 ADP.2: 11 residues within 4Å: Chain A: W.908, N.912, Q.915, P.934, T.935, G.936, S.937, G.938, K.939, T.940 Ligands: MN.4 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:N.912, A:N.912, A:Q.915, A:Q.915, A:G.936, A:S.937, A:G.938, A:K.939, A:T.940, A:T.940, A:T.940 Salt bridges: A:K.939 ADP.3: 13 residues within 4Å: Chain A: Q.158, V.819, F.820, I.821, R.823, L.826, H.1118, F.1119, P.1120, F.1253, H.1258, Y.1260, R.1447 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:Q.158, A:V.819, A:I.821, A:F.1119, A:R.1447, A:R.1447 Water bridges: A:Y.185, A:Y.185 Salt bridges: A:R.823, A:H.1118, A:H.1118, A:R.1447, A:R.1447

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.4: 3 residues within 4Å: Chain A: D.1038, D.1039 Ligands: ADP.2 No protein-ligand interaction detected (PLIP) MN.5: 3 residues within 4Å: Chain A: D.195, E.196 Ligands: ADP.1 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.195, A:E.196

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.6: 5 residues within 4Å: Chain A: W.731, S.732, F.735, R.764, E.863 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.764

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Absmeier, E. et al., Molecular Mechanism Underlying Inhibition of Intrinsic ATPase Activity in a Ski2-like RNA Helicase. Structure (2020)

Release Date

2020-01-15

Peptides

Pre-mRNA splicing helicase-like protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Pre-mRNA splicing helicase-like protein

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