7DBF image
Entry Detail
PDB ID:
7DBF
Keywords:
Title:
The structure of the Arabidopsis thaliana guanosine deaminase
Biological Source:
Source Organism:
Host Organism:
PDB Version:
Deposition Date:
2020-10-20
Release Date:
2021-09-29
Method Details:
Experimental Method:
Resolution:
1.90 Å
R-Value Free:
0.19
R-Value Work:
0.16
R-Value Observed:
0.16
Space Group:
P 61
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Guanosine deaminase
Chain IDs:A, B (auth: D)
Chain Length:161
Number of Molecules:2
Biological Source:Arabidopsis thaliana
Ligand Molecules
Primary Citation
The C-terminal loop of Arabidopsis thaliana guanosine deaminase is essential to catalysis.
Chem.Commun.(Camb.) 57 9748 9751 (2021)
PMID: 34477187 DOI: 10.1039/d1cc03042f

Abstact

Guanosine deaminase (GSDA) in plants specifically deaminates (de)guanosine to produce xanthosine with high specificity, which is further converted to xanthine, a key intermediate in purine metabolism and nitrogen recycling. We solved GSDA's structures from Arabidopsis thaliana in the free and ligand-bound forms at high resolutions. Unlike GDA, the enzyme employs a single-proton shuttle mechanism for catalysis and both the substrate and enzyme undergo structural rearrangements. The last fragment of the enzyme loops back and seals the active site, and the substrate rotates during the reaction, both essential to deamination. We further identified more substrates that could be employed by the enzyme and compare it with other deaminases to reveal the recognition differences of specific substrates. Our studies provide insight into this important enzyme involved in purine metabolism and will potentially aid in the development of deaminase-based gene-editing tools.

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Primary Citation of related structures