3deg

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{{STRUCTURE_3deg| PDB=3deg | SCENE= }}
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==Complex of elongating Escherichia coli 70S ribosome and EF4(LepA)-GMPPNP==
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===Complex of elongating Escherichia coli 70S ribosome and EF4(LepA)-GMPPNP===
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<StructureSection load='3deg' size='340' side='right' caption='[[3deg]], [[Resolution|resolution]] 10.90&Aring;' scene=''>
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{{ABSTRACT_PUBMED_19172743}}
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== Structural highlights ==
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<table><tr><td colspan='2'>[[3deg]] is a 11 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli] and [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DEG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3DEG FirstGlance]. <br>
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</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=1MA:6-HYDRO-1-METHYLADENOSINE-5-MONOPHOSPHATE'>1MA</scene>, <scene name='pdbligand=2MG:2N-METHYLGUANOSINE-5-MONOPHOSPHATE'>2MG</scene>, <scene name='pdbligand=5MC:5-METHYLCYTIDINE-5-MONOPHOSPHATE'>5MC</scene>, <scene name='pdbligand=5MU:5-METHYLURIDINE+5-MONOPHOSPHATE'>5MU</scene>, <scene name='pdbligand=7MG:7N-METHYL-8-HYDROGUANOSINE-5-MONOPHOSPHATE'>7MG</scene>, <scene name='pdbligand=H2U:5,6-DIHYDROURIDINE-5-MONOPHOSPHATE'>H2U</scene>, <scene name='pdbligand=M2G:N2-DIMETHYLGUANOSINE-5-MONOPHOSPHATE'>M2G</scene>, <scene name='pdbligand=OMC:O2-METHYLYCYTIDINE-5-MONOPHOSPHATE'>OMC</scene>, <scene name='pdbligand=OMG:O2-METHYLGUANOSINE-5-MONOPHOSPHATE'>OMG</scene>, <scene name='pdbligand=PSU:PSEUDOURIDINE-5-MONOPHOSPHATE'>PSU</scene>, <scene name='pdbligand=YG:WYBUTOSINE'>YG</scene></td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">lepA, b2569, JW2553 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3deg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3deg OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3deg RCSB], [http://www.ebi.ac.uk/pdbsum/3deg 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/de/3deg_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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EF4 (LepA) is an almost universally conserved translational GTPase in eubacteria. It seems to be essential under environmental stress conditions and has previously been shown to back-translocate the tRNAs on the ribosome, thereby reverting the canonical translocation reaction. In the current work, EF4 was directly visualized in the process of back-translocating tRNAs by single-particle cryo-EM. Using flexible fitting methods, we built a model of ribosome-bound EF4 based on the cryo-EM map and a recently published unbound EF4 X-ray structure. The cryo-EM map establishes EF4 as a noncanonical elongation factor that interacts not only with the elongating ribosome, but also with the back-translocated tRNA in the A-site region, which is present in a previously unseen, intermediate state and deviates markedly from the position of a canonical A-tRNA. Our results, therefore, provide insight into the underlying structural principles governing back-translocation.
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==About this Structure==
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A new tRNA intermediate revealed on the ribosome during EF4-mediated back-translocation.,Connell SR, Topf M, Qin Y, Wilson DN, Mielke T, Fucini P, Nierhaus KH, Spahn CM Nat Struct Mol Biol. 2008 Sep;15(9):910-5. PMID:19172743<ref>PMID:19172743</ref>
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[[3deg]] is a 11 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli] and [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DEG OCA].
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
==See Also==
==See Also==
*[[Escherichia coli LepA%2C the ribosomal back translocase|Escherichia coli LepA%2C the ribosomal back translocase]]
*[[Escherichia coli LepA%2C the ribosomal back translocase|Escherichia coli LepA%2C the ribosomal back translocase]]
*[[GTP-binding protein|GTP-binding protein]]
*[[GTP-binding protein|GTP-binding protein]]
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*[[Ribosomal protein L11|Ribosomal protein L11]]
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== References ==
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*[[Ribosomal protein S12|Ribosomal protein S12]]
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<references/>
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__TOC__
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==Reference==
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</StructureSection>
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<ref group="xtra">PMID:019172743</ref><references group="xtra"/><references/>
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[[Category: Ecoli]]
[[Category: Ecoli]]
[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
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[[Category: Connell, S R.]]
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[[Category: Connell, S R]]
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[[Category: Fucini, P.]]
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[[Category: Fucini, P]]
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[[Category: Mielke, T.]]
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[[Category: Mielke, T]]
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[[Category: Nierhaus, K H.]]
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[[Category: Nierhaus, K H]]
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[[Category: Qin, Y.]]
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[[Category: Qin, Y]]
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[[Category: Spahn, C M.T.]]
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[[Category: Spahn, C M.T]]
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[[Category: Topf, M.]]
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[[Category: Topf, M]]
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[[Category: Wilson, D N.]]
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[[Category: Wilson, D N]]
[[Category: Antibiotic resistance]]
[[Category: Antibiotic resistance]]
[[Category: Ef4]]
[[Category: Ef4]]

Revision as of 23:05, 3 January 2015

Complex of elongating Escherichia coli 70S ribosome and EF4(LepA)-GMPPNP

3deg, resolution 10.90Å

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