› 5aox

X-ray diffraction
2.04Å resolution

Human Alu RNA retrotransposition complex in the ribosome-stalling conformation

Released:
DOI: 10.2210/pdb5aox/pdb
PDB entry 5aox coloured by chain, front view.
PDB entry 5aox coloured by chain, side view.
PDB entry 5aox coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Retrotransposition and Crystal Structure of an Alu RNP in the Ribosome-Stalling Conformation.
Ahl V, Keller H, Schmidt S, Weichenrieder O
Mol Cell 60 715-727 (2015)
PMID: 26585389

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-153357 (preferred)
Entry contents:
2 distinct polypeptide molecules
1 distinct RNA molecule
Macromolecules (3 distinct):
Signal recognition particle 9 kDa protein Chains: A, D
Molecule details ›
Chains: A, D
Length: 85 amino acids
Theoretical weight: 9.98 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P49458 (Residues: 2-86; Coverage: 99%)
Gene name: SRP9
Sequence domains: Signal recognition particle 9 kDa protein (SRP9)
Structure domains: Signal recognition particle alu RNA binding heterodimer, srp9/1
Signal recognition particle 14 kDa protein Chains: B, E
Molecule details ›
Chains: B, E
Length: 94 amino acids
Theoretical weight: 10.56 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P37108 (Residues: 2-95; Coverage: 69%)
Gene name: SRP14
Sequence domains: Signal recognition particle 14kD protein
Structure domains: Signal recognition particle alu RNA binding heterodimer, srp9/1
ALU JO CONSENSUS RNA Chains: C, F
Molecule details ›
Chains: C, F
Length: 87 nucleotides
Theoretical weight: 28.24 KDa

Ligands and Environments

4 bound ligands:
Ligand ACT 2 x ACT
Ligand SO4 2 x SO4
Ligand PEG 1 x PEG
Ligand MG 4 x MG
1 modified residue:
Ligand GDP 2 x GDP

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06DA
Spacegroup: C2
Unit cell:
a: 81.48Å b: 56.73Å c: 170.59Å
α: 90° β: 93.69° γ: 90°
R-values:
R R work R free
0.187 0.186 0.222
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

13 review citations

Roles for retrotransposon insertions in human disease.
Hancks et al. (2016)
12 more

5 mentions without citation

Control of box C/D snoRNP assembly by N6-methylation of adenine.
Huang et al. (2017)
4 more