1R3O
Crystal structure of the first RNA duplex in L-conformation at 1.9A resolution
Summary for 1R3O
| Entry DOI | 10.2210/pdb1r3o/pdb |
| Descriptor | L-RNA (3 entities in total) |
| Functional Keywords | l-rna, rna |
| Total number of polymer chains | 4 |
| Total formula weight | 10230.31 |
| Authors | Vallazza, M.,Perbandt, M.,Klussmann, S.,Rypniewski, W.,Erdmann, V.A.,Betzel, C. (deposition date: 2003-10-02, release date: 2003-12-23, Last modification date: 2024-02-14) |
| Primary citation | Vallazza, M.,Perbandt, M.,Klussmann, S.,Rypniewski, W.,Einspahr, H.M.,Erdmann, V.A.,Betzel, C.h. First look at RNA in L-configuration. Acta Crystallogr.,Sect.D, 60:1-7, 2004 Cited by PubMed Abstract: Nucleic acid molecules in the mirror image or L-configuration are unknown in nature and are extraordinarily resistant to biological degradation. The identification of functional L-oligonucleotides called Spiegelmers offers a novel approach for drug discovery based on RNA. The sequence r(CUGGGCGG).r(CCGCCUGG) was chosen as a model system for structural analysis of helices in the L-configuration as the structure of the D-form of this sequence has previously been determined in structural studies of 5S RNA domains, in particular domain E of the Thermus flavus 5S rRNA [Perbandt et al. (2001), Acta Cryst. D57, 219-224]. Unexpectedly, the results of crystallization trials showed little similarity between the D- and the L-forms of the duplex in either the crystallization hits or the diffraction performance. The crystal structure of this L-RNA duplex has been determined at 1.9 A resolution with R(work) and R(free) of 23.8 and 28.6%, respectively. The crystals belong to space group R32, with unit-cell parameters a = 45.7, c = 264.6 A. Although there are two molecules in the asymmetric unit rather than one, the structure of the L-form arranges helical pairs in a head-to-tail fashion to form pseudo-continuous infinite helices in the crystal as in the D-form. On the other hand, the wobble-like G.C(+) base pair seen in the D-RNA analogue does not appear in the L-RNA duplex, which forms a regular double-helical structure with typical Watson-Crick base pairing. PubMed: 14684885DOI: 10.1107/S0907444903027690 PDB entries with the same primary citation |
| Experimental method | X-RAY DIFFRACTION (1.9 Å) |
Structure validation
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