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357d

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[[Image:357d.gif|left|200px]]
 
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{{Structure
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==3.5 A structure of fragment I from E. coli 5S RRNA==
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|PDB= 357d |SIZE=350|CAPTION= <scene name='initialview01'>357d</scene>, resolution 3.500&Aring;
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<StructureSection load='357d' size='340' side='right'caption='[[357d]], [[Resolution|resolution]] 3.50&Aring;' scene=''>
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|SITE=
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== Structural highlights ==
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|LIGAND= <scene name='pdbligand=A:ADENOSINE-5&#39;-MONOPHOSPHATE'>A</scene>, <scene name='pdbligand=C:CYTIDINE-5&#39;-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=G:GUANOSINE-5&#39;-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=HG:MERCURY+(II)+ION'>HG</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SSU:URIDINE-5&#39;-PHOSPHOROTHIOATE'>SSU</scene>, <scene name='pdbligand=U:URIDINE-5&#39;-MONOPHOSPHATE'>U</scene>
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<table><tr><td colspan='2'>[[357d]] is a 3 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=357D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=357D FirstGlance]. <br>
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|ACTIVITY=
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.5&#8491;</td></tr>
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|GENE=
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HG:MERCURY+(II)+ION'>HG</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SSU:URIDINE-5-PHOSPHOROTHIOATE'>SSU</scene></td></tr>
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|DOMAIN=
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=357d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=357d OCA], [https://pdbe.org/357d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=357d RCSB], [https://www.ebi.ac.uk/pdbsum/357d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=357d ProSAT]</span></td></tr>
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|RELATEDENTRY=
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</table>
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=357d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=357d OCA], [http://www.ebi.ac.uk/pdbsum/357d PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=357d RCSB]</span>
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__TOC__
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}}
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</StructureSection>
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[[Category: Escherichia coli]]
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'''3.5 A STRUCTURE OF FRAGMENT I FROM E. COLI 5S RRNA'''
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[[Category: Large Structures]]
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[[Category: Correll CC]]
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[[Category: Freeborn B]]
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==Overview==
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[[Category: Moore PB]]
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Two new RNA structures portray how non-Watson-Crick base pairs and metal ions can produce a unique RNA shape suitable for recognition by proteins. The crystal structures of a 62 nt domain of E. coli 5S ribosomal RNA and a duplex dodecamer encompassing an internal loop E have been determined at 3.0 and 1.5 A, respectively. This loop E region is distorted by three "cross-strand purine stacks" and three novel, water-mediated noncanonical base pairs and stabilized by a four metal ion zipper. These features give its minor groove a unique hydrogen-bonding surface and make the adjacent major groove wide enough to permit recognition by the ribosomal protein L25, which is expected to bind to this surface.
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[[Category: Steitz TA]]
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==About this Structure==
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357D 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=357D OCA].
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==Reference==
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Metals, motifs, and recognition in the crystal structure of a 5S rRNA domain., Correll CC, Freeborn B, Moore PB, Steitz TA, Cell. 1997 Nov 28;91(5):705-12. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/9393863 9393863]
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[[Category: ]]
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[[Category: Protein complex]]
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[[Category: Correll, C C.]]
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[[Category: Freeborn, B.]]
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[[Category: Moore, P B.]]
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[[Category: Steitz, T A.]]
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[[Category: double helix]]
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[[Category: internal loop]]
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[[Category: kinked]]
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[[Category: mismatched]]
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[[Category: modified]]
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[[Category: overhanging base]]
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[[Category: u-rna]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:21:43 2008''
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Current revision

3.5 A structure of fragment I from E. coli 5S RRNA

PDB ID 357d

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