SMTL ID : 6s3h.1 (1 other biounit)

Crystal structure of helicase Pif1 from Thermus oshimai in complex with ADP-AlF4 and (dT)7ds11bp

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.06 Å

Oligo State

monomer

Ligands

1 x DT- DT- DT- DT- DT- DT: DNA (5'-D(P*TP*TP*TP*TP*TP*T)-3')(Non-covalent)

DT-DT-DT-DT-DT-DT.1: 29 residues within 4Å: Chain A: P.54, T.55, G.56, T.66, H.68, S.69, R.72, A.75, R.76, V.153, P.155, G.156, P.238, R.239, R.240, F.269, D.273, P.275, R.292, N.301, V.332, W.333, E.334, K.335, I.336, T.367, H.369, K.370, F.388 Protein-ligand interaction information (PLIP) not available

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

ADP.2: 15 residues within 4Å: Chain A: G.4, S.6, Q.9, G.31, T.32, G.33, K.34, T.35, T.36, Q.192, R.193, R.195, T.375 Ligands: ALF.3, MG.4 25 PLIP interactions: 25 interactions with chain A Hydrogen bonds: A:S.6, A:Q.9, A:Q.9, A:G.31, A:T.32, A:G.33, A:K.34, A:T.35, A:T.35, A:T.36, A:T.36, A:R.195, A:T.375, A:T.375 Water bridges: A:T.36, A:R.193, A:R.193, A:R.193, A:R.195, A:R.399, A:R.401, A:R.401 Salt bridges: A:K.34, A:R.193, A:R.193

1 x ALF: TETRAFLUOROALUMINATE ION(Non-covalent)

ALF.3: 10 residues within 4Å: Chain A: A.30, G.31, K.34, E.109, Q.149, R.193, G.373, R.399 Ligands: ADP.2, MG.4 No protein-ligand interaction detected (PLIP)

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 4 residues within 4Å: Chain A: T.35, E.109 Ligands: ADP.2, ALF.3 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:T.35, H2O.3, H2O.4, H2O.6

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dai, Y.X. et al., Structural and functional studies of SF1B Pif1 from Thermus oshimai reveal dimerization-induced helicase inhibition. Nucleic Acids Res. (2021)

Release Date

2021-01-13

Peptides

PIF1 helicase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

PIF1 helicase

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