6qx6 | pdb_00006qx6

Structure of gtPebB-dihydrobiliverdin complex

spinqualitylabelsall models 6qx6, resolution 1.65Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 6qx6 is a 2 chain structure with sequence from Cryptophyte. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Ligands: 1PE, DBV, SO4 Related: 6qwq Gene: GUITHDRAFT_96430 (Cryptophyte) Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Publication Abstract from PubMed Phycobilins are light-harvesting pigments of cyanobacteria, red algae and cryptophytes. The biosynthesis of phycoerythrobilin (PEB) is catalyzed by the subsequent action of two ferredoxin-dependent bilin reductases (FDBRs). While 15,16-dihydrobiliverdin (DHBV): ferredoxin oxidoreductase (PebA) catalyzes the two electron reduction of biliverdin IXa to 15,16-DHBV, PEB:ferredoxin oxidoreductase (PebB) reduces this intermediate further to PEB. Interestingly, marine viruses encode the FDBR PebS combining both activities within one enzyme. Although PebA and PebS share a canonical fold with similar substrate binding pockets, the structural determinants for the stereo- and regiospecific modification of their tetrapyrrole substrates are incompletely understood, also due to the lack of a PebB structure.Here, we solved the X-ray crystal structures of both substrate-free and -bound PEBB from the cryptophyte Guillardia theta at 1.90 and 1.65A, respectively. The structures of PEBB exhibit the typical alpha/beta/alpha-sandwich fold. Interestingly, the open-chain tetrapyrrole substrate DHBV is bound in an unexpected flipped orientation within the canonical FDBR active site. Biochemical analyses of the WT enzyme and active site variants identified two central aspartate residues Asp-99 and Asp-219 as essential for catalytic activity. In addition, the conserved Arg-215 plays a critical role in substrate specificity, binding orientation and active site integrity. As these critical residues are conserved within certain FDBRs displaying A-ring reduction activity, we propose that they present a conserved mechanism for this reaction. The flipped substrate-binding mode indicates that two-electron reducing FDBRs utilize the same primary site within the binding pocket, and that substrate orientation is the determinant for A- or D-ring regiospecificity. Crystal structure of the first eukaryotic bilin reductase GtPEBB reveals a flipped binding mode of dihydrobiliverdin.,Sommerkamp JA, Frankenberg-Dinkel N, Hofmann E J Biol Chem. 2019 Jul 31. pii: RA119.009306. doi: 10.1074/jbc.RA119.009306. PMID:31366727 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

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