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| - | [[Image:1qc0.gif|left|200px]] | |
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| - | {{Structure
| + | ==CRYSTAL STRUCTURE OF A 19 BASE PAIR COPY CONTROL RELATED RNA DUPLEX== |
| - | |PDB= 1qc0 |SIZE=350|CAPTION= <scene name='initialview01'>1qc0</scene>, resolution 1.55Å
| + | <StructureSection load='1qc0' size='340' side='right'caption='[[1qc0]], [[Resolution|resolution]] 1.55Å' scene=''> |
| - | |SITE=
| + | == Structural highlights == |
| - | |LIGAND= <scene name='pdbligand=NH4:AMMONIUM ION'>NH4</scene>
| + | <table><tr><td colspan='2'>[[1qc0]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QC0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1QC0 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]] 1.55Å</td></tr> |
| - | |GENE=
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NH4:AMMONIUM+ION'>NH4</scene></td></tr> |
| - | }}
| + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1qc0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qc0 OCA], [https://pdbe.org/1qc0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1qc0 RCSB], [https://www.ebi.ac.uk/pdbsum/1qc0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1qc0 ProSAT]</span></td></tr> |
| - | | + | </table> |
| - | '''CRYSTAL STRUCTURE OF A 19 BASE PAIR COPY CONTROL RELATED RNA DUPLEX'''
| + | __TOC__ |
| - | | + | </StructureSection> |
| - | | + | [[Category: Escherichia coli]] |
| - | ==Overview== | + | [[Category: Large Structures]] |
| - | The structures of two RNA duplexes, whose sequences correspond to portions of the ColE1 plasmid copy control RNA I and RNA II, have been determined. Crystals containing the 18mers 5'-CA CCGUUGGUAGCGGUGC-3' and 5'-CACCGCUACCAACGGUGC-3' diffract to 1.20 A resolution while those containing the 19mers 5'-GCACCGUUGGUAGCGGUGC-3' and 5'-GCACCGCUACCAACGGUGC-3' diffract to 1.55 A resolution. Both duplexes are standard A form, with Watson-Crick base pairing throughout. Use of anisotropic atomic displacement factors in refinement of the 1.20 A structure dramatically improved refinement statistics, resulting in a final R(free) of 15.0% and a crystallographic R-factor of 11.6%. Perhaps surprisingly, these crystals of the 18 base pair RNA exhibit a 36-fold static disorder, resulting in a structure with a single sugar-phosphate backbone conformation and an averaged base composition at each residue. Since the sugar-phosphate backbone structure is identical in the 36 different nucleotides that are superimposed, there can be no sequence-dependent variation in the structure. The average ribose pucker amplitude is 45.8 degrees for the 18 base pair structure and 46.4 degrees for the 19 base pair structure; these values are respectively 19% and 20% larger than the average pucker amplitude reported from nucleoside crystal structures. A standard RNA water structure, based on analysis of the hydration of these crystal structures and that of the TAR RNA stem [Ippolito, J. A., and Steitz, T. A. (1998) Proc. Natl. Acad. Sci. U.S.A. 95, 9819-9824], has been derived, which has allowed us to predict water positions in lower resolution RNA crystal structures. We report a new RNA packing motif, in which three pro-S(p) phosphate oxygens interact with an ammonium ion.
| + | [[Category: Klosterman PS]] |
| - | | + | [[Category: Shah SA]] |
| - | ==About this Structure== | + | [[Category: Steitz TA]] |
| - | 1QC0 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=1QC0 OCA].
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| - | | + | |
| - | ==Reference== | + | |
| - | Crystal structures of two plasmid copy control related RNA duplexes: An 18 base pair duplex at 1.20 A resolution and a 19 base pair duplex at 1.55 A resolution., Klosterman PS, Shah SA, Steitz TA, Biochemistry. 1999 Nov 9;38(45):14784-92. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/10555960 10555960]
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| - | [[Category: Protein complex]] | + | |
| - | [[Category: Klosterman, P S.]] | + | |
| - | [[Category: Shah, S A.]] | + | |
| - | [[Category: Steitz, T A.]] | + | |
| - | [[Category: NH4]] | + | |
| - | [[Category: a-rna structure]] | + | |
| - | [[Category: ribonucleic acid]] | + | |
| - | | + | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 13:35:40 2008''
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