1P3Y

MrsD from Bacillus sp. HIL-Y85/54728

Summary for 1P3Y

• Entry DOI: 10.2210/pdb1p3y/pdb
• Descriptor: MrsD protein, FLAVIN-ADENINE DINUCLEOTIDE (3 entities in total)
• Functional Keywords: flavoprotein, fmn, rossmann fold, hfcd family, oxdidative decarboxylation, cystein, lantibiotics, mersacidin, oxidoreductase
• Biological source: Bacillus sp.
• Total number of polymer chains: 1
• Total formula weight: 22493.81

Authors

Blaesse, M.,Kupke, T.,Huber, R.,Steinbacher, S. (deposition date: 2003-04-19, release date: 2003-08-05, Last modification date: 2023-10-25)

Primary citation

Blaesse, M.,Kupke, T.,Huber, R.,Steinbacher, S.
Structure of MrsD, an FAD-binding protein of the HFCD family.
Acta Crystallogr.,Sect.D, 59:1414-1421, 2003

PubMed Abstract: MrsD from Bacillus sp. HIL-Y85/54728 is a member of the HFCD (homo-oligomeric flavin-containing Cys decarboxylases) family of flavoproteins and is involved in the biosynthesis of the lantibiotic mersacidin. It catalyses the oxidative decarboxylation of the C-terminal cysteine residue of the MrsA precursor peptide of mersacidin, yielding a (Z)-enethiol intermediate as the first step in the formation of the unusual amino acid S-[(Z)-2-aminovinyl]-methyl-D-cysteine. Surprisingly, MrsD was found to bind FAD, in contrast to the three other characterized members of the HFCD family, which bind FMN. To determine the molecular discriminators of FAD binding within the HFCD family, the crystal structure of MrsD was analyzed at a resolution of 2.54 A. Crystals of space group F432 contain one MrsD monomer in the asymmetric unit. However, a Patterson search with EpiD-derived models failed. Based on the consideration that the dodecameric MrsD particle of tetrahedral symmetry resembles the quaternary structure of EpiD, rotational and translational parameters were derived from the geometric consideration that the MrsD dodecamer is generated from a monomer by crystallographic symmetry around the position (1/4, 1/4, 1/4) of the unit cell. A structural comparison with the FMN-binding members of the HFCD family EpiD and AtHAL3a shows conserved sequence motifs in contact with the flavin's pyrimidine ring but divergent environments for the dimethylbenzene ring of the isoalloxazine moiety. The position of the ribityl chain differs in MrsD from that found in EpiD and AtHAL3a. However, the FMN-phosphate binding sites are also highly conserved in their exact positions. In all three cases, the flavin cofactor is bound to a structurally conserved region of the Rossmann-fold monomer, exposing its Re side for catalysis. The adenosyl phosphate of FAD is anchored in a well defined binding site and the adenosine moieties are oriented towards the interior of the hollow particle, where three of them pack against each other around the threefold axis of a trimeric facet.

PubMed: 12876343
DOI: 10.1107/S0907444903011831

Experimental method

X-RAY DIFFRACTION (2.54 Å)