6ZX5 image
Deposition Date 2020-07-29
Release Date 2021-05-26
Last Version Date 2024-01-31
Entry Detail
PDB ID:
6ZX5
Keywords:
Title:
Racemic compound of RNA duplexes.
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
1.52 Å
R-Value Free:
0.28
R-Value Work:
0.21
Space Group:
P 1
Macromolecular Entities
Polymer Type:polyribonucleotide
Molecule:RNA (5'-R(*CP*UP*GP*GP*GP*CP*GP*G)-3')
Chain IDs:A (auth: K)
Chain Length:8
Number of Molecules:1
Biological Source:Thermus thermophilus
Polymer Type:polyribonucleotide
Molecule:RNA (5'-R(*CP*CP*GP*CP*CP*UP*GP*G)-3')
Chain IDs:B (auth: L)
Chain Length:8
Number of Molecules:1
Biological Source:Thermus thermophilus
Polymer Type:polyribonucleotide
Molecule:RNA (5'-R(*(0C)P*(0U)P*(0G)P*(0G)P*(0G)P*(0C)P*(0G)P*(0G))-3')
Chain IDs:C (auth: M)
Chain Length:8
Number of Molecules:1
Biological Source:Thermus thermophilus
Polymer Type:polyribonucleotide
Molecule:RNA (5'-R(*(0C)P*(0C)P*(0G)P*(0C)P*(0C)P*(0U)P*(0G)P*(0G))-3')
Chain IDs:D (auth: N)
Chain Length:8
Number of Molecules:1
Biological Source:Thermus thermophilus
Ligand Molecules
Primary Citation
Broken symmetry between RNA enantiomers in a crystal lattice.
Nucleic Acids Res. 49 12535 12539 (2021)
PMID: 34107036 DOI: 10.1093/nar/gkab480

Abstact

Explaining the origin of the homochirality of biological molecules requires a mechanism of disrupting the natural equilibrium between enantiomers and amplifying the initial imbalance to significant levels. Authors of existing models have sought an explanation in the parity-breaking weak nuclear force, in some selectively acting external factor, or in random fluctuations that subsequently became amplified by an autocatalytic process. We have obtained crystals in which l- and d-enantiomers of short RNA duplexes assemble in an asymmetric manner. These enantiomers make different lattice contacts and have different exposures to water and metal ions present in the crystal. Apparently, asymmetry between enantiomers can arise upon their mutual interactions and then propagate via crystallization. Asymmetric racemic compounds are worth considering as possible factors in symmetry breaking and enantioenrichment that took place in the early biosphere.

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Primary Citation of related structures