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| - | [[Image:1qbp.gif|left|200px]] | |
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| - | {{Structure
| + | ==CRYSTAL STRUCTURE OF A BROMINATED RNA HELIX WITH FOUR MISMATCHED BASE PAIRS== |
| - | |PDB= 1qbp |SIZE=350|CAPTION= <scene name='initialview01'>1qbp</scene>, resolution 2.1Å
| + | <StructureSection load='1qbp' size='340' side='right'caption='[[1qbp]], [[Resolution|resolution]] 2.10Å' scene=''> |
| - | |SITE=
| + | == Structural highlights == |
| - | |LIGAND= <scene name='pdbligand=A:ADENOSINE-5'-MONOPHOSPHATE'>A</scene>, <scene name='pdbligand=C:CYTIDINE-5'-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=CBV:5-BROMOCYTIDINE+5'-(DIHYDROGEN+PHOSPHATE)'>CBV</scene>, <scene name='pdbligand=G:GUANOSINE-5'-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=U:URIDINE-5'-MONOPHOSPHATE'>U</scene>
| + | <table><tr><td colspan='2'>[[1qbp]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QBP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1QBP 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]] 2.1Å</td></tr> |
| - | |GENE=
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CBV:5-BROMOCYTIDINE+5-(DIHYDROGEN+PHOSPHATE)'>CBV</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=1qbp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qbp OCA], [https://pdbe.org/1qbp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1qbp RCSB], [https://www.ebi.ac.uk/pdbsum/1qbp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1qbp ProSAT]</span></td></tr> |
| - | |RELATEDENTRY=
| + | </table> |
| - | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1qbp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qbp OCA], [http://www.ebi.ac.uk/pdbsum/1qbp PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1qbp RCSB]</span>
| + | __TOC__ |
| - | }}
| + | </StructureSection> |
| - | | + | [[Category: Large Structures]] |
| - | '''CRYSTAL STRUCTURE OF A BROMINATED RNA HELIX WITH FOUR MISMATCHED BASE PAIRS'''
| + | [[Category: Anderson AC]] |
| - | | + | [[Category: Filman DJ]] |
| - | | + | [[Category: Frederick CA]] |
| - | ==Overview==
| + | [[Category: O'Neil RH]] |
| - | The X-ray crystal structure of a brominated RNA helix with four mismatched base pairs and sequence r(UG(Br)C(Br)CAGUUCGCUGGC)(2) was determined to 2.1 A using the methods of multiwavelength anomalous diffraction (MAD) applied to the bromine K-absorption edge. There are three molecules in the asymmetric unit with unique crystal-packing environments, revealing true conformational variability at high resolution for this sequence. The structure shows that the sequence itself does not define a consistent pattern of solvent molecules, with the exception of the mismatched base pairs, implying that specific RNA-protein interactions would occur only with the nucleotides. There are a number of significant tertiary interactions, some of which are a result of the brominated base pairs and others that are directly mediated by the RNA 2' hydroxyl groups. The mismatched base pairs exhibit a solvent network as well as a stacking pattern with their nearest neighbors that validate previous thermodynamic analysis.
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| - | | + | |
| - | ==About this Structure==
| + | |
| - | 1QBP 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=1QBP OCA].
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| - | | + | |
| - | ==Reference==
| + | |
| - | Crystal structure of a brominated RNA helix with four mismatched base pairs: An investigation into RNA conformational variability., Anderson AC, O'Neil RH, Filman DJ, Frederick CA, Biochemistry. 1999 Sep 28;38(39):12577-85. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/10504226 10504226]
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| - | [[Category: Protein complex]] | + | |
| - | [[Category: Anderson, A C.]] | + | |
| - | [[Category: Filman, D J.]] | + | |
| - | [[Category: Frederick, C A.]] | + | |
| - | [[Category: Neil, R H.O.]] | + | |
| - | [[Category: brominated cytosine]]
| + | |
| - | [[Category: mismatched base pair]]
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| - | | + | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 23:11:30 2008''
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