7cmc | pdb_00007cmc

CRYSTAL STRUCTURE OF DEOXYHYPUSINE SYNTHASE FROM PYROCOCCUS HORIKOSHII

spinqualitylabelsall models 7cmc, resolution 2.20Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 7cmc is a 4 chain structure. This structure supersedes the now removed PDB entry 4p63. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Ligands: NAD Activity: Transferase, with EC number 2.5.1.46 Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Function [DHYS_PYRHO] Catalyzes the NAD-dependent oxidative cleavage of spermidine and the subsequent transfer of the butylamine moiety of spermidine to the epsilon-amino group of a specific lysine residue of the eIF-5A precursor protein to form the intermediate deoxyhypusine residue. Publication Abstract from PubMed The eukaryotic and archaeal translation factor IF5A requires a post-translational hypusine modification, which is catalyzed by deoxyhypusine synthase (DHS) at a single lysine residue of IF5A with NAD(+) and spermidine as cofactors, followed by hydroxylation to form hypusine. While human DHS catalyzed reactions have been well characterized, the mechanism of the hypusination of archaeal IF5A by DHS is not clear. Here we report a DHS structure from Pyrococcus horikoshii OT3 (PhoDHS) at 2.2 A resolution. The structure reveals two states in a single functional unit (tetramer): two NAD(+)-bound monomers with the NAD(+) and spermidine binding sites observed in multi-conformations (closed and open), and two NAD(+)-free monomers. The dynamic loop region V288-P299, in the vicinity of the active site, adopts different positions in the closed and open conformations and is disordered when NAD(+) is absent. Combined with NAD(+) binding analysis, it is clear that PhoDHS can exist in three states: apo, PhoDHS-2 equiv NAD(+), and PhoDHS-4 equiv NAD(+), which are affected by the NAD(+) concentration. Our results demonstrate the dynamic structure of PhoDHS at the NAD(+) and spermidine binding site, with conformational changes that may be the response to the local NAD(+) concentration, and thus fine-tune the regulation of the translation process via the hypusine modification of IF5A. Flexible NAD(+) Binding in Deoxyhypusine Synthase Reflects the Dynamic Hypusine Modification of Translation Factor IF5A.,Chen M, Gai Z, Okada C, Ye Y, Yu J, Yao M Int J Mol Sci. 2020 Jul 31;21(15). pii: ijms21155509. doi: 10.3390/ijms21155509. PMID:32752130 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

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