SMTL ID : 6qv4.1

Crystal structure of the Ski2 RNA-helicase Brr2 from Chaetomium thermophilum bound to ATP-gamma-S

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

monomer

Ligands

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

MN.1: 2 residues within 4Å: Chain A: E.1195, H.1199 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.1195, A:H.1199 MN.2: 3 residues within 4Å: Chain A: D.195, E.196 Ligands: AGS.4 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:E.196 MN.3: 2 residues within 4Å: Chain A: T.940 Ligands: AGS.6 No protein-ligand interaction detected (PLIP)

3 x AGS: PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER(Non-covalent)

AGS.4: 18 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, E.196, N.402, Q.433, G.436, R.437 Ligands: MN.2 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:N.62, A:Q.65, A:Q.65, A:T.85, A:G.86, A:S.87, A:G.88, A:K.89, A:K.89, A:T.90, A:T.90, A:T.90, A:N.402, A:N.402, A:Q.433, A:R.437, A:R.437 Salt bridges: A:K.89 AGS.5: 16 residues within 4Å: Chain A: Q.158, E.162, Y.185, V.819, F.820, I.821, R.823, L.826, H.1118, F.1119, P.1120, F.1253, H.1258, Y.1260, R.1447, H.1448 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:Q.158, A:Y.185, A:V.819, A:I.821, A:R.823, A:F.1119, A:R.1447, A:R.1447, A:H.1448, A:H.1448 Salt bridges: A:H.1118, A:H.1118, A:R.1447, A:R.1447 AGS.6: 13 residues within 4Å: Chain A: W.908, N.912, Q.915, T.935, G.936, S.937, G.938, K.939, T.940, V.941, D.1038, D.1039 Ligands: MN.3 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: 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 pi-Stacking: A:W.908, A:W.908

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.7: 2 residues within 4Å: Chain A: K.420, Y.607 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.420 ACT.8: 7 residues within 4Å: Chain A: Y.734, F.735, D.736, L.737, C.756, V.759, S.760 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.759 Hydrogen bonds: A:Y.734, A:D.736, A:L.737

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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