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| - | [[Image:405d.gif|left|200px]] | |
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| - | {{Structure
| + | ==STRUCTURE OF A 16-MER RNA DUPLEX R(GCAGACUUAAAUCUGC)2 WITH WOBBLE LIKE A.C MISMATCHES== |
| - | |PDB= 405d |SIZE=350|CAPTION= <scene name='initialview01'>405d</scene>, resolution 2.50Å
| + | <StructureSection load='405d' size='340' side='right'caption='[[405d]], [[Resolution|resolution]] 2.50Å' 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=G:GUANOSINE-5'-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=U:URIDINE-5'-MONOPHOSPHATE'>U</scene>
| + | <table><tr><td colspan='2'>[[405d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=405D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=405D 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]] 2.5Å</td></tr> |
| - | |GENE=
| + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=405d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=405d OCA], [https://pdbe.org/405d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=405d RCSB], [https://www.ebi.ac.uk/pdbsum/405d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=405d ProSAT]</span></td></tr> |
| - | |DOMAIN=
| + | </table> |
| - | |RELATEDENTRY=
| + | __TOC__ |
| - | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=405d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=405d OCA], [http://www.ebi.ac.uk/pdbsum/405d PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=405d RCSB]</span>
| + | </StructureSection> |
| - | }}
| + | [[Category: Large Structures]] |
| - | | + | [[Category: Mitra SN]] |
| - | '''STRUCTURE OF A 16-MER RNA DUPLEX R(GCAGACUUAAAUCUGC)2 WITH WOBBLE LIKE A.C MISMATCHES'''
| + | [[Category: Pan B]] |
| - | | + | [[Category: Sundaralingam M]] |
| - | | + | |
| - | ==Overview==
| + | |
| - | The crystal structure of a 16-mer, the longest known RNA duplex, has been determined at 2.5 A resolution. The hexadecamer r(GCAGACUUAAAUCUGC) contains isolated C.A/A.C mismatches with two hydrogen bonds. The two hydrogen bonds in the mismatches suggests that N1 of A is protonated even though the crystallization was done at neutral pH. Therefore, the C.A mismatch is a C.A+ wobble similar to the G.U wobble. The two C.A+ pairs are isolated by four Watson-Crick pairs and flanked by five Watson-Crick base-pairs on either sides. Kinks/bends of 20 degrees are observed at the wobble sites. The Watson-Crick base-pair A5.U26 on the 5'-side of the first C6.A27(+) wobble has a twist angle of 27 degrees compared to the 3'-side U7.A28 pair of 36 degrees. The twist angles are reversed (37 degrees and 26 degrees) in the second A11(+).C22 wobble because of the approximate dyad in the molecule, the flanking base-pair sequences are A.U pairs. The wobbles expand the major groove to 7.1 A/7.3 A. The duplexes form helical columns and are tightly packed around the 31-screw axis. The minor grooves of adjacent columns in juxtaposition interact through the O2' atoms and the anionic phosphate oxygen atoms.Copyright 1998 Academic Press.
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| - | | + | |
| - | ==About this Structure==
| + | |
| - | 405D 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=405D OCA].
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| - | | + | |
| - | ==Reference==
| + | |
| - | Structure of a 16-mer RNA duplex r(GCAGACUUAAAUCUGC)2 with wobble C.A+ mismatches., Pan B, Mitra SN, Sundaralingam M, J Mol Biol. 1998 Nov 13;283(5):977-84. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/9799637 9799637]
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| - | [[Category: Protein complex]] | + | |
| - | [[Category: Mitra, S N.]] | + | |
| - | [[Category: Pan, M Sundaralingam B.]] | + | |
| - | [[Category: a-rna double helix]] | + | |
| - | | + | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:36:50 2008''
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