8X6Z

1-naphthylamine GS from Pseudomonas sp. JS3066

This is a non-PDB format compatible entry.

Summary for 8X6Z

• Entry DOI: 10.2210/pdb8x6z/pdb
• Descriptor: Glutamine synthetase, MANGANESE (II) ION (3 entities in total)
• Functional Keywords: glutamine synthetase, 1-naphthylamine glutamine synthetase, ligase
• Biological source: Pseudomonas
• Total number of polymer chains: 6
• Total formula weight: 342149.79

Authors

Zhou, N.Y.,Zhang, S.T. (deposition date: 2023-11-22, release date: 2024-01-03, Last modification date: 2025-01-15)

Primary citation

Zhang, S.T.,Deng, S.K.,Li, T.,Maloney, M.E.,Li, D.F.,Spain, J.C.,Zhou, N.Y.
Discovery of the 1-naphthylamine biodegradation pathway reveals a broad-substrate-spectrum enzyme catalyzing 1-naphthylamine glutamylation.
Elife, 13:-, 2024

PubMed Abstract: 1-Naphthylamine (1NA), which is harmful to human and aquatic animals, has been used widely in the manufacturing of dyes, pesticides, and rubber antioxidants. Nevertheless, little is known about its environmental behavior and no bacteria have been reported to use it as the growth substrate. Herein, we describe a pathway for 1NA degradation in the isolate sp. strain JS3066, determine the structure and mechanism of the enzyme NpaA1 that catalyzes the initial reaction, and reveal how the pathway evolved. From genetic and enzymatic analysis, a five gene-cluster encoding a dioxygenase system was determined to be responsible for the initial steps in 1NA degradation through glutamylation of 1NA. The γ-glutamylated 1NA was subsequently oxidized to 1,2-dihydroxynaphthalene which was further degraded by the well-established pathway of naphthalene degradation via catechol. A glutamine synthetase-like (GS-like) enzyme (NpaA1) initiates 1NA glutamylation, and this enzyme exhibits a broad substrate selectivity toward a variety of anilines and naphthylamine derivatives. Structural analysis revealed that the aromatic residues in the 1NA entry tunnel and the V201 site in the large substrate-binding pocket significantly influence NpaA1's substrate preferences. The findings enhance understanding of degrading polycyclic aromatic amines, and will also enable the application of bioremediation at naphthylamine contaminated sites.

PubMed: 39163210
DOI: 10.7554/eLife.95555

Experimental method

X-RAY DIFFRACTION (2.95 Å)