› 1t0d

X-ray diffraction
2.2Å resolution

Crystal Structure of 2-aminopurine labelled bacterial decoding site RNA

Released:
DOI: 10.2210/pdb1t0d/pdb
PDB entry 1t0d coloured by chain, front view.
PDB entry 1t0d coloured by chain, side view.
PDB entry 1t0d coloured by chain, top view.
Source organism: Synthetic construct
Primary publication:
Monitoring molecular recognition of the ribosomal decoding site.
Shandrick S, Zhao Q, Han Q, Ayida BK, Takahashi M, Winters GC, Simonsen KB, Vourloumis D, Hermann T
Angew Chem Int Ed Engl 43 3177-82 (2004)
PMID: 15199571

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-196212 (preferred)
Entry contents:
2 distinct RNA molecules
Macromolecules (2 distinct):
5'-R(*GP*GP*UP*GP*GP*UP*GP*(MTU)P*AP*GP*UP*CP*GP*CP*UP*GP*G)-3' Chains: A, C
Molecule details ›
Chains: A, C
Length: 17 nucleotides
Theoretical weight: 5.56 KDa
Source organism: Synthetic construct
Expression system: Not provided
5'-R(*CP*AP*GP*CP*GP*UP*CP*AP*CP*AP*CP*CP*AP*CP*CP*C)-3' Chains: B, D
Molecule details ›
Chains: B, D
Length: 16 nucleotides
Theoretical weight: 5.02 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

No bound ligands
1 modified residue:
Ligand MTU 2 x MTU

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU
Spacegroup: P21
Unit cell:
a: 31.64Å b: 87.32Å c: 32.79Å
α: 90° β: 93.27° γ: 90°
R-values:
R R work R free
0.205 0.205 0.266
Expression system: Not provided

Quick links

Citations

11 review citations

Drugs targeting the ribosome.
Hermann T. (2005)
10 more

2 mentions without citation

Sequence dependent variations in RNA duplex are related to non-canonical hydrogen bond interactions in dinucleotide steps.
Kailasam et al. (2014)
1 more