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| - | ==Structure of RelE nuclease bound to the 70S ribosome (precleavage state; Part 3 of 4)==
| + | #REDIRECT [[4v7j]] This PDB entry is obsolete and replaced by 4v7j |
| - | <StructureSection load='3kis' size='340' side='right' caption='[[3kis]], [[Resolution|resolution]] 3.30Å' scene=''>
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| - | == Structural highlights ==
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| - | <table><tr><td colspan='2'>[[3kis]] is a 25 chain structure with sequence from [http://en.wikipedia.org/wiki/Citharichthys_darwini Citharichthys darwini], [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus] and [http://en.wikipedia.org/wiki/Thermus_thermophilus_hb8 Thermus thermophilus hb8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KIS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3KIS FirstGlance]. <br>
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| - | </td></tr><tr><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>
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| - | <tr><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=5MU:5-METHYLURIDINE+5-MONOPHOSPHATE'>5MU</scene>, <scene name='pdbligand=A2M:2-O-METHYLADENOSINE+5-(DIHYDROGEN+PHOSPHATE)'>A2M</scene>, <scene name='pdbligand=OMG:O2-METHYLGUANOSINE-5-MONOPHOSPHATE'>OMG</scene>, <scene name='pdbligand=OMU:O2-METHYLURIDINE+5-MONOPHOSPHATE'>OMU</scene></td></tr>
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| - | <tr><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3kiq|3kiq]], [[3kir|3kir]], [[3kit|3kit]], [[3kiu|3kiu]], [[3kiw|3kiw]], [[3kix|3kix]], [[3kiy|3kiy]]</td></tr>
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| - | <tr><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">b1563, JW1555, relE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1231348 Citharichthys darwini])</td></tr>
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| - | <tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3kis FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kis OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3kis RCSB], [http://www.ebi.ac.uk/pdbsum/3kis PDBsum]</span></td></tr>
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| - | <table>
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| - | == Evolutionary Conservation ==
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| - | [[Image:Consurf_key_small.gif|200px|right]]
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| - | Check<jmol>
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| - | <jmolCheckbox>
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| - | <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ki/3kis_consurf.spt"</scriptWhenChecked>
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| - | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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| - | <text>to colour the structure by Evolutionary Conservation</text>
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| - | </jmolCheckbox>
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| - | </jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
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| - | <div style="clear:both"></div>
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| - | <div style="background-color:#fffaf0;">
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| - | == Publication Abstract from PubMed ==
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| - | Translational control is widely used to adjust gene expression levels. During the stringent response in bacteria, mRNA is degraded on the ribosome by the ribosome-dependent endonuclease, RelE. The molecular basis for recognition of the ribosome and mRNA by RelE and the mechanism of cleavage are unknown. Here, we present crystal structures of E. coli RelE in isolation (2.5 A) and bound to programmed Thermus thermophilus 70S ribosomes before (3.3 A) and after (3.6 A) cleavage. RelE occupies the A site and causes cleavage of mRNA after the second nucleotide of the codon by reorienting and activating the mRNA for 2'-OH-induced hydrolysis. Stacking of A site codon bases with conserved residues in RelE and 16S rRNA explains the requirement for the ribosome in catalysis and the subtle sequence specificity of the reaction. These structures provide detailed insight into the translational regulation on the bacterial ribosome by mRNA cleavage.
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| - | The structural basis for mRNA recognition and cleavage by the ribosome-dependent endonuclease RelE.,Neubauer C, Gao YG, Andersen KR, Dunham CM, Kelley AC, Hentschel J, Gerdes K, Ramakrishnan V, Brodersen DE Cell. 2009 Dec 11;139(6):1084-95. PMID:20005802<ref>PMID:20005802</ref>
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| - | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
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| - | </div>
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| - | ==See Also==
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| - | *[[Ribosomal protein THX|Ribosomal protein THX]]
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| - | *[[Ribosome 3D structures|Ribosome 3D structures]]
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| - | == References ==
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| - | <references/>
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| - | __TOC__
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| - | </StructureSection>
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| - | [[Category: Citharichthys darwini]]
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| - | [[Category: Thermus thermophilus]]
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| - | [[Category: Thermus thermophilus hb8]]
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| - | [[Category: Andersen, K R.]]
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| - | [[Category: Brodersen, D E.]]
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| - | [[Category: Dunham, C M.]]
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| - | [[Category: Gao, Y G.]]
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| - | [[Category: Gerdes, K.]]
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| - | [[Category: Hentschel, J.]]
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| - | [[Category: Kelley, A C.]]
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| - | [[Category: Neubauer, C.]]
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| - | [[Category: Ramakrishnan, V.]]
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| - | [[Category: Metal-binding]]
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| - | [[Category: Nuclease]]
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| - | [[Category: Rele]]
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| - | [[Category: Repressor]]
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| - | [[Category: Ribonucleoprotein]]
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| - | [[Category: Ribosomal protein]]
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| - | [[Category: Ribosome]]
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| - | [[Category: Rna-binding]]
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| - | [[Category: Rrna-binding]]
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| - | [[Category: Stress response]]
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| - | [[Category: Toxin]]
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| - | [[Category: Translation]]
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| - | [[Category: Translation regulation]]
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| - | [[Category: Trna-binding]]
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| - | [[Category: Zinc-finger]]
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