9QM6 image
Deposition Date 2025-03-21
Release Date 2025-11-19
Last Version Date 2025-11-19
Entry Detail
PDB ID:
9QM6
Keywords:
Title:
Crystal structure of highly stable methionine gamma-lyase from Thermobrachium celere in complex with PLP and norleucine
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
2.61 Å
R-Value Free:
0.26
R-Value Work:
0.24
R-Value Observed:
0.25
Space Group:
P 61 2 2
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:L-methionine gamma-lyase
Gene (Uniprot):TCEL_00634
Chain IDs:A, B, C, D
Chain Length:419
Number of Molecules:4
Biological Source:Thermobrachium celere
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
LLP A LYS modified residue
Primary Citation
The methioninase from the alkalithermophile Thermobrachium celere possesses suitable properties for treatment of cancer.
Int.J.Biol.Macromol. 330 147876 147876 (2025)
PMID: 41005402 DOI: 10.1016/j.ijbiomac.2025.147876

Abstact

L-Methionine deprivation for cancer treatment requires pyridoxal 5'-phosphate (PLP)-dependent L-methionine γ-lyases (MGL) with sustained activity in plasma. We investigated the MGL from the alkaliphilic thermophile Thermobrachium celere (TcMGL), which was compared to that from Pseudomonas putida (PpMGL) as a reference. Catalysis was limited to L-methionine, L-homocysteine, and L-cysteine, with highest catalytic efficiency towards L-methionine. Binding of apo-TcMGL to PLP results from an endothermic entropy-driven process, contrasting with apo-PpMGL that binds to cofactor following an exothermic enthalpy-driven reaction, as demonstrated with isothermal titration calorimetry. The tetrameric crystal structure of TcMGL revealed a mobile domain adopting open and closed conformations, regulating access of substrate and PLP to the active site. TcMGL exhibited great stability in human plasma in vitro. Half-life of the active enzyme increased from 9.2 h to 66.7 h with increasing PLP concentration, in much greater magnitude than that of PpMGL. Two-way ANOVA demonstrated a highly significant effect on half-lives of enzyme type and PLP concentration. The enzyme eliminated L-methionine from human plasma and exerted potent cytotoxicity against human carcinoma cells in vitro. TcMGL favourable characteristics make it a suitable candidate for treatment of cancer.

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Primary Citation of related structures
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