› 7dm6

X-ray diffraction
2.05Å resolution

The structure of the Arabidopsis thaliana guanosine deaminase complexed with crotonoside

Released:
DOI: 10.2210/pdb7dm6/pdb
PDB entry 7dm6 coloured by chain, front view.
PDB entry 7dm6 coloured by chain, side view.
PDB entry 7dm6 coloured by chain, top view.
Source organism: Arabidopsis thaliana
Primary publication:
Substrate Specificity of GSDA Revealed by Cocrystal Structures and Binding Studies.
Jia Q, Zhang J, Zeng H, Tang J, Xiao N, Gao S, Li H, Xie W
OpenAccess logo Int J Mol Sci 23 (2022)
PMID: 36499303

Function and Biology Details

Reaction catalysed: 
Guanosine + H(2)O = xanthosine + NH(3)
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-188219 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Guanosine deaminase Chains: A, D
Molecule details ›
Chains: A, D
Length: 161 amino acids
Theoretical weight: 17.52 KDa
Source organism: Arabidopsis thaliana
Expression system: Escherichia coli
UniProt:
  • Canonical: Q94BU8 (Residues: 29-185; Coverage: 85%)
Gene names: At5g28050, GSDA, TAD4
Sequence domains: Cytidine and deoxycytidylate deaminase zinc-binding region

Ligands and Environments

2 bound ligands:
Ligand ZN 2 x ZN
Ligand H5F 2 x H5F
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-007 HF
Spacegroup: P61
Unit cell:
a: 118.794Å b: 118.794Å c: 39.63Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.173 0.172 0.2
Expression system: Escherichia coli

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Citations

2 mentions without citation

Binding asymmetry and conformational studies of the AtGSDA dimer.
Jia et al. (2023)
1 more