› 5i9h

X-ray diffraction
2.5Å resolution

Crystal structure of designed pentatricopeptide repeat protein dPPR-U8G2 in complex with its target RNA U8G2

Released:
DOI: 10.2210/pdb5i9h/pdb
PDB entry 5i9h coloured by chain, front view.
PDB entry 5i9h coloured by chain, side view.
PDB entry 5i9h coloured by chain, top view.
Source organisms:
Primary publication:
Structural basis for specific single-stranded RNA recognition by designer pentatricopeptide repeat proteins.
Shen C, Zhang D, Guan Z, Liu Y, Yang Z, Yang Y, Wang X, Wang Q, Zhang Q, Fan S, Zou T, Yin P
Nat Commun 7 11285 (2016)
PMID: 27088764

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
PDBe Complex ID:
PDB-CPX-165781 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
pentatricopeptide repeat protein dPPR-U8G2 Chain: A
Molecule details ›
Chain: A
Length: 460 amino acids
Theoretical weight: 51.49 KDa
Source organism: unidentified
Expression system: Escherichia coli BL21(DE3)
RNA (5'-R(*GP*GP*GP*GP*UP*UP*UP*UP*GP*GP*UP*UP*UP*UP*CP*CP*CP*C)-3') Chain: B
Molecule details ›
Chain: B
Length: 18 nucleotides
Theoretical weight: 5.7 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL19U1
Spacegroup: P212121
Unit cell:
a: 52.063Å b: 85.098Å c: 95.397Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.227 0.223 0.296
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

17 review citations

Lexis and Grammar of Mitochondrial RNA Processing in Trypanosomes.
Aphasizheva et al. (2020)
16 more

1 mention without citation

Structural basis for specific single-stranded RNA recognition by designer pentatricopeptide repeat proteins.
Shen et al. (2016)