9X50 | pdb_00009x50

Crystal structure of Fgm3 in complex with PLP and L-Ala

• PDB DOI: https://doi.org/10.2210/pdb9X50/pdb

• Classification: BIOSYNTHETIC PROTEIN
• Organism(s): Fusarium graminearum PH-1
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2025-10-12 Released: 2026-05-20 
• Deposition Author(s): Zhang, H., Xia, M., Fang, P., Liu, W.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 
  0.187 (Depositor), 0.186 (DCC) 
• R-Value Work: 
  0.151 (Depositor), 0.152 (DCC) 
• R-Value Observed: 
  0.153 (Depositor) 

Starting Model: experimental

Literature

Structural and Mechanistic Insights into Fgm3-Catalyzed C beta-C gamma Bond Cleavage of an Amino Acid

Zhang, H., Xia, M., Mu, X., Fang, P., Tang, Z., Liu, W.

(2026) ACS Catal 16: 8609-8618

• DOI: https://doi.org/10.1021/acscatal.6c01156

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 90.49 kDa 
• Atom Count: 6,791 
• Modeled Residue Count: 792 
• Deposited Residue Count: 816 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Aminotransferase-like protein FGM3	A, B	408	Fusarium graminearum PH-1	Mutation(s): 0  Gene Names: FGM3, FGRAMPH1_01T20965 EC: 2
UniProt
Find proteins for A0A1C3YKE0 (Gibberella zeae (strain ATCC MYA-4620 / CBS 123657 / FGSC 9075 / NRRL 31084 / PH-1)) Explore A0A1C3YKE0  Go to UniProtKB:  A0A1C3YKE0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
0JO (Subject of Investigation/LOI)	D [auth A], F [auth B]	2-{[(E)-{3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methylidene]amino}prop-2-enoic acid C11 H13 N2 O7 P BHIGINKEEFZJGX-YIXHJXPBSA-N
GOL	C [auth A], E [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free:  0.187 (Depositor), 0.186 (DCC) 
• R-Value Work:  0.151 (Depositor), 0.152 (DCC) 
• R-Value Observed: 0.153 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 69.803	α = 90
b = 98.013	β = 116.35
c = 69.827	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
XDS	data reduction
PHASER	phasing
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2026-05-20 
Deposition Author(s): Zhang, H., Xia, M., Fang, P., Liu, W.

---

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	22522706

Revision History  

• Version 1.0: 2026-05-20
  Type: Initial release