6MDF image
Deposition Date 2018-09-04
Release Date 2018-12-19
Last Version Date 2023-10-11
Entry Detail
PDB ID:
6MDF
Keywords:
Title:
Mevalonate kinase from Methanosarcina mazei with 5-phosphomevalonate bound
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.46 Å
R-Value Free:
0.26
R-Value Work:
0.20
R-Value Observed:
0.20
Space Group:
P 21 21 21
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Mevalonate kinase
Gene (Uniprot):mvk
Chain IDs:A, B
Chain Length:303
Number of Molecules:2
Biological Source:Methanosarcina mazei
Primary Citation
Structural insight into substrate and product binding in an archaeal mevalonate kinase.
PLoS ONE 13 e0208419 e0208419 (2018)
PMID: 30521590 DOI: 10.1371/journal.pone.0208419

Abstact

Mevalonate kinase (MK) is a key enzyme of the mevalonate pathway, which produces the biosynthetic precursors for steroids, including cholesterol, and isoprenoids, the largest class of natural products. Currently available crystal structures of MK from different organisms depict the enzyme in its unbound, substrate-bound, and inhibitor-bound forms; however, until now no structure has yet been determined of MK bound to its product, 5-phosphomevalonate. Here, we present crystal structures of mevalonate-bound and 5-phosphomevalonate-bound MK from Methanosarcina mazei (MmMK), a methanogenic archaeon. In contrast to the prior structure of a eukaryotic MK bound with mevalonate, we find a striking lack of direct interactions between this archaeal MK and its substrate. Further, these two MmMK structures join the prior structure of the apoenzyme to complete the first suite of structural snapshots that depict unbound, substrate-bound, and product-bound forms of the same MK. With this collection of structures, we now provide additional insight into the catalytic mechanism of this biologically essential enzyme.

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