|
|
| (12 intermediate revisions not shown.) |
| Line 1: |
Line 1: |
| - | [[Image:1r3o.gif|left|200px]] | |
| | | | |
| - | {{Structure
| + | ==Crystal structure of the first RNA duplex in L-conformation at 1.9A resolution== |
| - | |PDB= 1r3o |SIZE=350|CAPTION= <scene name='initialview01'>1r3o</scene>, resolution 1.90Å
| + | <StructureSection load='1r3o' size='340' side='right'caption='[[1r3o]], [[Resolution|resolution]] 1.90Å' scene=''> |
| - | |SITE=
| + | == Structural highlights == |
| - | |LIGAND= <scene name='pdbligand=LC:L-CYTIDINE-5'-MONOPHOSPHATE'>LC</scene>, <scene name='pdbligand=LG:L-GUANOSINE-5'-MONOPHOSPHATE'>LG</scene>, <scene name='pdbligand=LHU:L-URIDINE-5'-MONOPHOSPHATE'>LHU</scene> | + | <table><tr><td colspan='2'>[[1r3o]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1R3O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1R3O FirstGlance]. <br> |
| - | |ACTIVITY=
| + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.9Å</td></tr> |
| - | |GENE=
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=0C:L-CYTIDINE-5-MONOPHOSPHATE'>0C</scene>, <scene name='pdbligand=0G:L-GUANOSINE-5-MONOPHOSPHATE'>0G</scene>, <scene name='pdbligand=0U:L-URIDINE-5-MONOPHOSPHATE'>0U</scene></td></tr> |
| - | |DOMAIN=
| + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1r3o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1r3o OCA], [https://pdbe.org/1r3o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1r3o RCSB], [https://www.ebi.ac.uk/pdbsum/1r3o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1r3o ProSAT]</span></td></tr> |
| - | |RELATEDENTRY=
| + | </table> |
| - | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1r3o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1r3o OCA], [http://www.ebi.ac.uk/pdbsum/1r3o PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1r3o RCSB]</span>
| + | __TOC__ |
| - | }}
| + | </StructureSection> |
| - | | + | [[Category: Large Structures]] |
| - | '''Crystal structure of the first RNA duplex in L-conformation at 1.9A resolution'''
| + | [[Category: Betzel C]] |
| - | | + | [[Category: Erdmann VA]] |
| - | | + | [[Category: Klussmann S]] |
| - | ==Overview==
| + | [[Category: Perbandt M]] |
| - | 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.
| + | [[Category: Rypniewski W]] |
| - | | + | [[Category: Vallazza M]] |
| - | ==About this Structure==
| + | |
| - | 1R3O is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1R3O OCA].
| + | |
| - | | + | |
| - | ==Reference==
| + | |
| - | First look at RNA in L-configuration., Vallazza M, Perbandt M, Klussmann S, Rypniewski W, Einspahr HM, Erdmann VA, Betzel Ch, Acta Crystallogr D Biol Crystallogr. 2004 Jan;60(Pt 1):1-7. Epub 2003 Dec, 18. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/14684885 14684885]
| + | |
| - | [[Category: Protein complex]] | + | |
| - | [[Category: Betzel, C.]] | + | |
| - | [[Category: Erdmann, V A.]] | + | |
| - | [[Category: Klussmann, S.]] | + | |
| - | [[Category: Perbandt, M.]] | + | |
| - | [[Category: Rypniewski, W.]] | + | |
| - | [[Category: Vallazza, M.]] | + | |
| - | [[Category: l-rna]]
| + | |
| - | | + | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 23:22:48 2008''
| + | |
