› 7d3t

X-ray diffraction
2.7Å resolution

Crystal structure of OSPHR2 in complex with DNA

Released:
DOI: 10.2210/pdb7d3t/pdb
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PDB entry 7d3t coloured by chain, front view.
PDB entry 7d3t coloured by chain, side view.
PDB entry 7d3t coloured by chain, top view.
Source organisms:
Primary publication:
Mechanistic insights into the regulation of plant phosphate homeostasis by the rice SPX2 - PHR2 complex.
Guan Z, Zhang Q, Zhang Z, Zuo J, Chen J, Liu R, Savarin J, Broger L, Cheng P, Wang Q, Pei K, Zhang D, Zou T, Yan J, Yin P, Hothorn M, Liu Z
OpenAccess logo Nat Commun 13 1581 (2022)
PMID: 35332155

Function and Biology Details

Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-110672 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Protein PHOSPHATE STARVATION RESPONSE 2 Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 144 amino acids
Theoretical weight: 15.97 KDa
Source organism: Oryza sativa Indica Group
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: B8B5N8 (Residues: 180-313; Coverage: 32%)
Gene names: OsI_25821, PHR2
Sequence domains: Myb-like DNA-binding domain
DNA (5'-D(P*GP*CP*TP*TP*GP*AP*GP*GP*AP*TP*AP*TP*CP*CP*GP*A)-3') Chains: E, G
Molecule details ›
Chains: E, G
Length: 16 nucleotides
Theoretical weight: 4.94 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(P*CP*TP*CP*GP*GP*AP*TP*AP*TP*CP*CP*TP*CP*AP*AP*G)-3') Chains: F, H

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL19U1
Spacegroup: P21
Unit cell:
a: 57.414Å b: 100.824Å c: 79.351Å
α: 90° β: 102.456° γ: 90°
R-values:
R R work R free
0.215 0.213 0.258
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

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Citations

7 citation in other articles

The cytoplasmic synthesis and coupled membrane translocation of eukaryotic polyphosphate by signal-activated VTC complex.
Guan et al. (2023)
6 more

PDB-REDO

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