Journal:MicroPubl Biol:000570
From Proteopedia
Biochemical and structural characterization of the flavodoxin-like domain of the Schizosaccharomyces japonicus putative tRNAPhe 4-demethylwyosine synthase TYW1 in complex with FMNLjiljana Sjekloća, Adrian R. Ferré-D’Amaré [1] Molecular Tour S-adenosyl-L-methionine-dependent 4-demethylwyosin synthase TYW1 is an iron-sulfur enzyme which merges pyruvate with pyrimidine-imidazole ring of methylated G37 to generate 4-demethylwyosine imG-14, the first tricyclic intermediate in wyosine biosynthesis. In Eukaryotes TYW1 is a two-domain protein which contains a flavodoxin-like domain at its amino-terminus and an iron-sulfur cluster carboxyl-terminal domain. We solved the crystal structure of fungal Tyw1 flavodoxin-like domain in complex with FMN (PDB 6pup and 6puq). The crystallographic model (PDB 6pup) contains two Mn (II) ions:
The crystallographic model (PDB 6pup), electrostatic potential:
The crystallographic model (PDB 6pup) contains two Mn (II) ions bridged by a water molecule (salmon and red spheres, respectively).
Remember to drag the structures with the mouse to rotate them. . FMN is in yellow ball-and-stick representation. The residues contacting FMN, hydrogen bonds (white dashed lines), and selected water molecules (red spheres) are shown. The TYW1 residues are in pink. Diametrically opposite the FMN binding site there is a system of several loops, the contains , residues conserved in all TYW1 proteins. . This loop is the most structurally dissimilar from the nearest structural homologues identified by a DALI search: eukaryotic NADP(H)-cytochrome 450 diflavin oxidoreductase (3qfc) and nitric-oxide synthase (1tll), and bacterial flavodoxin (5lji) and sulfite reductase NADP(H) flavoprotein (1ykg). The DALI server was used. TYW1 structural similarity to enzymes which couple FAD/FMN and NADP(H) coenzymes for their activity, together with the presence of an unexpected metal binding site, point to a very complex regulation of TYW1 by cell energy metabolism. PDB references: 1.9 A crystal structure of flavodoxin-like domain of Schizosaccharomyces japonicus putative tRNAPhe 4-demethylwyosine synthase TYW1 in complex with FMN 6pup; 1.56 A crystal structure of flavodoxin-like domain of Schizosaccharomyces japonicus putative tRNAPhe 4-demethylwyosine synthase TYW1 in complex with FMN 6puq. References
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