8ZN0

The Crystal Structure of an Atypical N-methyltransferasea PaOMT9 in P. amurense

This is a non-PDB format compatible entry.

Summary for 8ZN0

• Entry DOI: 10.2210/pdb8zn0/pdb
• Descriptor: PaOMT9, S-ADENOSYLMETHIONINE, (1~{S})-1-[(4-hydroxyphenyl)methyl]-6-methoxy-1,2,3,4-tetrahydroisoquinolin-7-ol, ... (4 entities in total)
• Functional Keywords: n-methyltransferasea paomt9, transferase
• Biological source: Phellodendron amurense
• Total number of polymer chains: 2
• Total formula weight: 81507.96

Authors

Xu, Z.C.,Tian, Y. (deposition date: 2024-05-25, release date: 2025-05-28, Last modification date: 2025-12-10)

Primary citation

Xu, Z.,Tian, Y.,Wang, J.,Ma, Y.,Li, Q.,Zhou, Y.,Zhang, W.,Liu, T.,Kong, L.,Wang, Y.,Xie, Z.,An, Z.,Zheng, B.,Zhang, Y.,Cao, C.,Liu, C.,Tian, L.,Fan, C.,Liu, J.,Yao, H.,Song, J.,Duan, B.,Liu, H.,Gao, R.,Sun, W.,Chen, S.
Convergent evolution of berberine biosynthesis.
Sci Adv, 10:eads3596-eads3596, 2024

PubMed Abstract: Berberine is an effective antimicrobial and antidiabetic alkaloid, primarily extracted from divergent botanical lineages, specifically (Ranunculales, early-diverging eudicot) and (Sapindales, core eudicot). In comparison with its known pathway in species, its biosynthesis in species remains elusive. Using chromosome-level genome assembly, coexpression matrix, and biochemical assays, we identified six key steps in berberine biosynthesis from , including methylation, hydroxylation, and berberine bridge formation. Notably, we discovered a specific class of -methyltransferases (NOMT) responsible for -methylation. Structural analysis and mutagenesis of PaNOMT9 revealed its unique substrate-binding conformation. In addition, unlike the classical FAD-dependent berberine bridge formation in Ranunculales, uses a NAD(P)H-dependent monooxygenase (PaCYP71BG29) for berberine bridge formation, originating from the neofunctionalization of tryptamine 5-hydroxylase. Together, these findings reveal the convergence of berberine biosynthesis between and and signify the role of the convergent evolution in plant specialized metabolisms.

PubMed: 39612339
DOI: 10.1126/sciadv.ads3596

Experimental method

X-RAY DIFFRACTION (1.8 Å)