1Y39: Co-Evolution Of Protein And Rna Structures Within A Highly Conserved Ribosomal Domain

Citation:
Abstract
The X-ray crystal structure of a ribosomal L11-rRNA complex with chloroplast-like mutations in both protein and rRNA is presented. The global structure is almost identical to that of the wild-type (bacterial) complex, with only a small movement of the protein alpha helix away from the surface of the RNA required to accommodate the altered protein residue. In contrast, the specific hydrogen bonding pattern of the mutated residues is substantially different, and now includes a direct interaction between the protein side chain and an RNA base edge and a water-mediated contact. Comparison of the two structures allows the observations of sequence variation and relative affinities of wild-type and mutant complexes to be clearly rationalized, but reinforces the concept that there is no single simple code for protein-RNA recognition.
PDB ID: 1Y39Download
MMDB ID: 32479
PDB Deposition Date: 2004/11/24
Updated in MMDB: 2012/10
Experimental Method:
x-ray diffraction
Resolution: 2.8  Å
Source Organism:
uncultured bacterium
Similar Structures:
Biological Unit for 1Y39: dimeric; determined by author
Molecular Components in 1Y39
Label Count Molecule
Protein (1 molecule)
1
50S Ribosomal Protein L11
Molecule annotation
Nucleotide(1 molecule)
1
58 Nucleotide Ribosomal 23S RNA Domain
Molecule annotation
Chemicals (12 molecules)
1
1
2
1
3
9
4
1
* Click molecule labels to explore molecular sequence information.

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