7EF7 image
Entry Detail
PDB ID:
7EF7
Keywords:
Title:
Crystal Structure of Xanthosine monophosphate phosphatase complex with XMP
Biological Source:
Source Organism:
PDB Version:
Deposition Date:
2021-03-21
Release Date:
2021-11-03
Method Details:
Experimental Method:
Resolution:
1.50 Å
R-Value Free:
0.23
R-Value Work:
0.21
R-Value Observed:
0.21
Space Group:
P 1 21 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:At2g32150/F22D22.10
Mutations:D12A
Chain IDs:A
Chain Length:250
Number of Molecules:1
Biological Source:Arabidopsis thaliana
Primary Citation
Initiation of cytosolic plant purine nucleotide catabolism involves a monospecific xanthosine monophosphate phosphatase.
Nat Commun 12 6846 6846 (2021)
PMID: 34824243 DOI: 10.1038/s41467-021-27152-4

Abstact

In plants, guanosine monophosphate (GMP) is synthesized from adenosine monophosphate via inosine monophosphate and xanthosine monophosphate (XMP) in the cytosol. It has been shown recently that the catabolic route for adenylate-derived nucleotides bifurcates at XMP from this biosynthetic route. Dephosphorylation of XMP and GMP by as yet unknown phosphatases can initiate cytosolic purine nucleotide catabolism. Here we show that Arabidopsis thaliana possesses a highly XMP-specific phosphatase (XMPP) which is conserved in vascular plants. We demonstrate that XMPP catalyzes the irreversible entry reaction of adenylate-derived nucleotides into purine nucleotide catabolism in vivo, whereas the guanylates enter catabolism via an unidentified GMP phosphatase and guanosine deaminase which are important to maintain purine nucleotide homeostasis. We also present a crystal structure and mutational analysis of XMPP providing a rationale for its exceptionally high substrate specificity, which is likely required for the efficient catalysis of the very small XMP pool in vivo.

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