9X51 | pdb_00009x51

Crystal structure of Fgm3 in complex with PLP and 4(S)-OH-L-Arg

PDB DOI: https://doi.org/10.2210/pdb9X51/pdb

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

Deposited: 2025-10-14 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: 1.48 Å
R-Value Free:
0.174 (Depositor), 0.174 (DCC)
R-Value Work:
0.156 (Depositor), 0.157 (DCC)
R-Value Observed:
0.157 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.0 of the entry. See complete history.

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

Macromolecule Content

Total Structure Weight: 90.91 kDa
Atom Count: 7,185
Modeled Residue Count: 796
Deposited Residue Count: 816
Unique protein chains: 1

Macromolecules

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| 3D Structure

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
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A1C3YKE0
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PLP (Subject of Investigation/LOI) Query on PLP Download:Ideal Coordinates CCD File SDF format, chain I [auth B] SDF format, chain E [auth A] MOL2 format, chain I [auth B] MOL2 format, chain E [auth A] mmCIF format, chain I [auth B] mmCIF format, chain E [auth A]	E [auth A], I [auth B]	PYRIDOXAL-5'-PHOSPHATE C₈ H₁₀ N O₆ P NGVDGCNFYWLIFO-UHFFFAOYSA-N		Interactions Focus chain E [auth A] Focus chain I [auth B] Interactions & Density Focus chain E [auth A] Focus chain I [auth B]
WYK (Subject of Investigation/LOI) Query on WYK Download:Ideal Coordinates CCD File SDF format, chain J [auth B] SDF format, chain F [auth A] MOL2 format, chain J [auth B] MOL2 format, chain F [auth A] mmCIF format, chain J [auth B] mmCIF format, chain F [auth A]	F [auth A], J [auth B]	(2S,4S)-4-hydroxy-L-arginine C₆ H₁₄ N₄ O₃ OPCBKDJCJYBGTQ-IMJSIDKUSA-N		Interactions Focus chain F [auth A] Focus chain J [auth B] Interactions & Density Focus chain F [auth A] Focus chain J [auth B]
GOL Query on GOL Download:Ideal Coordinates CCD File SDF format, chain H [auth B] SDF format, chain G [auth B] SDF format, chain D [auth A] SDF format, chain C [auth A] MOL2 format, chain H [auth B] MOL2 format, chain G [auth B] MOL2 format, chain D [auth A] MOL2 format, chain C [auth A] mmCIF format, chain H [auth B] mmCIF format, chain G [auth B] mmCIF format, chain D [auth A] mmCIF format, chain C [auth A]	C [auth A], D [auth A], G [auth B], H [auth B]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain D [auth A] Focus chain G [auth B] Focus chain H [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth A] Focus chain G [auth B] Focus chain H [auth B]