SNAP output for PDB entry 7s81 [SNAP web server]

PDB-id

7s81; SNAP-derived features in text and JSON formats; DNAproDB

Class

DNA binding protein

Method

X-ray (3.6 Å)

Summary

Structure of human parp1 domains (zn1, zn3, wgr, hd) bound to a DNA double strand break.

Reference

Rouleau-Turcotte E, Krastev DB, Pettitt SJ, Lord CJ, Pascal JM (2022): "Captured snapshots of PARP1 in the active state reveal the mechanics of PARP1 allostery." Mol.Cell, 82, 2939-2951.e5. doi: 10.1016/j.molcel.2022.06.011.

Abstract

PARP1 rapidly detects DNA strand break damage and allosterically signals break detection to the PARP1 catalytic domain to activate poly(ADP-ribose) production from NAD₊. PARP1 activation is characterized by dynamic changes in the structure of a regulatory helical domain (HD); yet, there are limited insights into the specific contributions that the HD makes to PARP1 allostery. Here, we have determined crystal structures of PARP1 in isolated active states that display specific HD conformations. These captured snapshots and biochemical analysis illustrate HD contributions to PARP1 multi-domain and high-affinity interaction with DNA damage, provide novel insights into the mechanics of PARP1 allostery, and indicate how HD active conformations correspond to alterations in the catalytic region that reveal the active site to NAD₊. Our work deepens the understanding of PARP1 catalytic activation, the dynamics of the binding site of PARP inhibitor compounds, and the mechanisms regulating PARP1 retention on DNA damage.