› 3r9w

X-ray diffraction
2.05Å resolution

Crystal structure of Era in complex with MgGDPNP and nucleotides 1506-1542 of 16S ribosomal RNA

Released:
DOI: 10.2210/pdb3r9w/pdb
PDB entry 3r9w coloured by chain, front view.
PDB entry 3r9w coloured by chain, side view.
PDB entry 3r9w coloured by chain, top view.
Source organism: Aquifex aeolicus
Primary publication:
The Era GTPase recognizes the GAUCACCUCC sequence and binds helix 45 near the 3' end of 16S rRNA.
Tu C, Zhou X, Tarasov SG, Tropea JE, Austin BP, Waugh DS, Court DL, Ji X
Proc Natl Acad Sci U S A 108 10156-61 (2011)
PMID: 21646538

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
hetero dimer (preferred)
hetero tetramer
Assembly name:
PDBe Complex ID:
PDB-CPX-130562 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
GTPase Era Chain: A
Molecule details ›
Chain: A
Length: 307 amino acids
Theoretical weight: 34.77 KDa
Source organism: Aquifex aeolicus
Expression system: Escherichia coli
UniProt:
  • Canonical: O67800 (Residues: 1-301; Coverage: 100%)
Gene names: aq_1994, era, era1
Sequence domains:
Structure domains:
RNA301 Chain: B
Molecule details ›
Chain: B
Length: 34 nucleotides
Theoretical weight: 10.91 KDa
Source organism: Aquifex aeolicus
Expression system: Not provided

Ligands and Environments

5 bound ligands:
Ligand MG 1 x MG
Ligand GNP 1 x GNP
Ligand ACT 5 x ACT
Ligand MRD 2 x MRD
Ligand CA 1 x CA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-BM
Spacegroup: C2
Unit cell:
a: 88.946Å b: 85.604Å c: 67.184Å
α: 90° β: 111.2° γ: 90°
R-values:
R R work R free
0.191 0.188 0.243
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

10 review citations

Quality control mechanisms during ribosome maturation.
Karbstein K. (2013)
9 more

6 mentions without citation

The Blueprint of a Minimal Cell: MiniBacillus.
Reuß et al. (2016)
5 more