SMTL ID : 9fi9.1

Human PIF + Z48847594 (OCCUPANCY 0.7)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.73 Å

Oligo State

monomer

Ligands

1 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER

ANP.1: 19 residues within 4Å: Chain A: M.3, Q.4, S.6, Q.9, S.27, A.28, G.29, T.30, G.31, K.32, S.33, Y.34, E.105, Q.144, W.178, R.179, G.357, R.382 Ligands: MG.2 25 PLIP interactions: 25 interactions with chain A Hydrogen bonds: A:S.6, A:Q.9, A:Q.9, A:G.29, A:T.30, A:G.31, A:K.32, A:K.32, A:K.32, A:S.33, A:Y.34, A:Q.144, A:Q.144, A:R.179, A:R.179, A:R.382, A:R.382 Water bridges: A:S.33, A:S.33, A:S.33, A:G.357, A:G.357 pi-Stacking: A:W.178, A:W.178, A:W.178

1 x MG: MAGNESIUM ION

MG.2: 3 residues within 4Å: Chain A: S.33, E.105 Ligands: ANP.1 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:S.33, H2O.4, H2O.9, H2O.9

1 x O0J: N-[4-(2-amino-1,3-thiazol-4-yl)phenyl]acetamide

O0J.3: 16 residues within 4Å: Chain A: G.55, V.56, V.230, N.234, D.262, A.263, Q.264, C.265, P.266, M.280, Q.345, L.346, A.349, M.350, K.354 Ligands: NA.4 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.56, A:K.354, A:K.354 Hydrogen bonds: A:N.234 Water bridges: A:Q.345, A:K.354, A:K.354

1 x NA: SODIUM ION

NA.4: 3 residues within 4Å: Chain A: D.262, C.265 Ligands: O0J.3 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:C.265

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wever, M.J.A. et al., Structure-based discovery of first inhibitors targeting the helicase activity of human PIF1. Nucleic Acids Res. (2024)

Release Date

2024-10-02

Peptides

ATP-dependent DNA helicase PIF1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

ATP-dependent DNA helicase PIF1

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