SMTL ID : 6s3n.2 (1 other biounit)

Crystal structure of helicase Pif1 from Thermus oshimai in complex with ssDNA (dT)18 and ADP-VO4

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.53 Å

Oligo State

monomer

Ligands

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

ADP.1: 17 residues within 4Å: Chain A: G.4, L.5, S.6, Q.9, P.29, G.31, T.32, G.33, K.34, T.35, T.36, Q.192, R.193, R.195, T.375 Ligands: MG.2, VO4.3 20 PLIP interactions: 20 interactions with chain A Hydrogen bonds: A:S.6, A:Q.9, A:Q.9, A:P.29, A:G.31, A:T.32, A:T.32, A:G.33, A:K.34, A:T.35, A:T.36, A:T.36, A:R.195, A:R.195, A:T.375 Water bridges: A:T.35, A:T.35 Salt bridges: A:K.34, A:R.193, A:R.193

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: T.35, D.108, E.109 Ligands: ADP.1, VO4.3 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:T.35, H2O.1, H2O.1, H2O.1

1 x VO4: VANADATE ION(Non-covalent)

VO4.3: 11 residues within 4Å: Chain A: A.30, G.31, K.34, E.109, Q.149, R.193, Q.372, G.373, R.399 Ligands: ADP.1, MG.2 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:G.31, A:K.34, A:Q.149, A:R.193, A:R.193, A:G.373, A:G.373, A:R.399, A:R.399 Water bridges: A:T.35, A:T.35, A:T.35, A:T.35

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
B

PIF1 helicase

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