› 6zk3

X-ray diffraction
1.75Å resolution

Plant nucleoside hydrolase - ZmNRh2b in complex with ribose

Released:
DOI: 10.2210/pdb6zk3/pdb
Model geometry
Fit model/data
PDB entry 6zk3 coloured by chain, front view.
PDB entry 6zk3 coloured by chain, side view.
PDB entry 6zk3 coloured by chain, top view.
Source organism: Zea mays
Primary publication:
Plant nucleoside N-ribohydrolases: riboside binding and role in nitrogen storage mobilization.
Ľuptáková E, Vigouroux A, Končitíková R, Kopečná M, Zalabák D, Novák O, Salcedo Sarmiento S, Ćavar Zeljković S, Kopečný DJ, von Schwartzenberg K, Strnad M, Spíchal L, De Diego N, Kopečný D, Moréra S
Plant J (2023)
PMID: 38044809

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-110384 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
uridine nucleosidase Chains: A, B, C, D, E, F
Molecule details ›
Chains: A, B, C, D, E, F
Length: 343 amino acids
Theoretical weight: 37.12 KDa
Source organism: Zea mays
Expression system: Escherichia coli
UniProt:
  • Canonical: B6THD4 (Residues: 1-325; Coverage: 100%)
Gene name: ZEAMMB73_Zm00001d031958
Sequence domains: Inosine-uridine preferring nucleoside hydrolase

Ligands and Environments

5 bound ligands:
Ligand CA 6 x CA
Ligand RIB 6 x RIB
Ligand EDO 20 x EDO
Ligand PGE 12 x PGE
Ligand PEG 14 x PEG
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: SOLEIL BEAMLINE PROXIMA 1
Spacegroup: P21
Unit cell:
a: 94.81Å b: 86.71Å c: 131.91Å
α: 90° β: 99.44° γ: 90°
R-values:
R R work R free
0.162 0.161 0.181
Expression system: Escherichia coli

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