Design of a halogen bond catalyzed DNA endonuclease

• 成果类型: Article
• 署名作者: Walker, Margaret G.; Mendez, Cesar Gustavo; Ho, Alexander N.; Czarny, Ryan S.; Rappe, Anthony K.; Ho, Pui Shing
• 署名单位: Colorado State University System; Colorado State University Fort Collins; Colorado State University System; Colorado State University Fort Collins
• 刊物名称: PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
• ISSN/ISSBN: 0027-11493
• DOI: 10.1073/pnas.2500099122
• 发表日期: 2025-04-08
• 关键词: chemistry; conformation; acids; base

摘要

In this study, we expand the repertoire of biological catalysts by showing that a halogen bond (X-bond) can functionally replace the magnesium (Mg2+) cofactor in mouse endonuclease G (mEndoG). We mutated the metal coordinating glutamate E136 in mEndoG to a meta-halotyrosine (mXY, X = chlorine or iodine) to form a mXY-mEndoG construct that is both acid and base catalyzed. Under basic conditions, the enzyme is inactivated by the metal chelator ethylene diamine tetraacetic acid (EDTA), indicating that the halogen substituent facilitates deprotonation of the tyrosyl hydroxyl group, allowing recruitment of Mg2+ to restore the metal-dependent catalytic center. At low pHs, we observe that the mXY-mEndoG is resistant to EDTA inactivation and that the iodinated constructed is significantly more active than the chlorinated analogue. These results implicate a hydrogen bond (H-bond) enhanced X-bond as the catalyst in the mXY-mEndoG, with asparagine N103 serving as the H-bond donor that communicates the protonation state of histidine H104 to the halogen. This model is supported by mutation studies and electrostatic potential (ESP) calculations on models for the protonated and unprotonated mXYN103H104 system compared to the Mg2+ coordination complex of the wild type. Thus, we have designed and engineered an enzyme that utilizes an unnatural catalyst in its active site-a catalytic X-bonding enzyme, or cX-Zyme-by controverting what constitutes a metal catalyst in biochemistry.