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2qnh

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[[Image:2qnh.png|left|200px]]
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==Interactions and Dynamics of the Shine-Dalgarno Helix in the 70S Ribosome. This file, 2QNH, contains the 30S ribosome subunit, two TRNA, and MRNA molecules. 50S ribosome subunit is in the file 1VSP.==
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<StructureSection load='2qnh' size='340' side='right' caption='[[2qnh]], [[Resolution|resolution]] 3.83&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[2qnh]] is a 24 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. The January 2010 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''70S Ribosomes'' by David Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2010_1 10.2210/rcsb_pdb/mom_2010_1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QNH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QNH FirstGlance]. <br>
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</td></tr><tr><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=2MG:2N-METHYLGUANOSINE-5-MONOPHOSPHATE'>2MG</scene>, <scene name='pdbligand=5MC:5-METHYLCYTIDINE-5-MONOPHOSPHATE'>5MC</scene>, <scene name='pdbligand=7MG:7N-METHYL-8-HYDROGUANOSINE-5-MONOPHOSPHATE'>7MG</scene>, <scene name='pdbligand=M2G:N2-DIMETHYLGUANOSINE-5-MONOPHOSPHATE'>M2G</scene>, <scene name='pdbligand=MA6:6N-DIMETHYLADENOSINE-5-MONOPHOSHATE'>MA6</scene>, <scene name='pdbligand=PSU:PSEUDOURIDINE-5-MONOPHOSPHATE'>PSU</scene></td></tr>
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<tr><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1vsp|1vsp]]</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=2qnh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qnh OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2qnh RCSB], [http://www.ebi.ac.uk/pdbsum/2qnh 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/qn/2qnh_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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The crystal structure of an initiation-like 70S ribosome complex containing an 8-bp Shine-Dalgarno (SD) helix was determined at 3.8-A resolution. Translation-libration-screw analysis showed that the inherent anisotropic motions of the SD helix were biased along its helical axis, suggesting that during the first step of translocation, the SD helix moves along its helical screw axis. Contacts between the SD helix and the ribosome were primarily through interactions with helices 23a, 26, and 28 of 16S rRNA. Contact with the neck (helix 28) of the 30S subunit near its hinge point suggests that formation of the SD helix could affect positioning of the head of the 30S subunit for optimal interaction with initiator tRNA. The bulged U723 in helix 23a interacts with the minor groove of the SD helix at the C1539.G-10 base pair, explaining its selective conservation in bacteria and archaea.
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{{STRUCTURE_2qnh| PDB=2qnh | SCENE= }}
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Interactions and dynamics of the Shine Dalgarno helix in the 70S ribosome.,Korostelev A, Trakhanov S, Asahara H, Laurberg M, Lancaster L, Noller HF Proc Natl Acad Sci U S A. 2007 Oct 23;104(43):16840-3. Epub 2007 Oct 16. PMID:17940016<ref>PMID:17940016</ref>
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===Interactions and Dynamics of the Shine-Dalgarno Helix in the 70S Ribosome. This file, 2QNH, contains the 30S ribosome subunit, two TRNA, and MRNA molecules. 50S ribosome subunit is in the file 1VSP.===
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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>
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{{ABSTRACT_PUBMED_17940016}}
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==About this Structure==
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[[2qnh]] is a 24 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. The January 2010 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''70S Ribosomes'' by David Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2010_1 10.2210/rcsb_pdb/mom_2010_1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QNH OCA].
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==See Also==
==See Also==
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*[[Ribosomal protein S10|Ribosomal protein S10]]
 
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*[[Ribosomal protein S11|Ribosomal protein S11]]
 
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*[[Ribosomal protein S12|Ribosomal protein S12]]
 
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*[[Ribosomal protein S13|Ribosomal protein S13]]
 
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*[[Ribosomal protein S14|Ribosomal protein S14]]
 
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*[[Ribosomal protein S15|Ribosomal protein S15]]
 
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*[[Ribosomal protein S16|Ribosomal protein S16]]
 
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*[[Ribosomal protein S17|Ribosomal protein S17]]
 
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*[[Ribosomal protein S18|Ribosomal protein S18]]
 
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*[[Ribosomal protein S19|Ribosomal protein S19]]
 
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*[[Ribosomal protein S2|Ribosomal protein S2]]
 
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*[[Ribosomal protein S20|Ribosomal protein S20]]
 
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*[[Ribosomal protein S3|Ribosomal protein S3]]
 
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*[[Ribosomal protein S4|Ribosomal protein S4]]
 
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*[[Ribosomal protein S5|Ribosomal protein S5]]
 
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*[[Ribosomal protein S6|Ribosomal protein S6]]
 
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*[[Ribosomal protein S7|Ribosomal protein S7]]
 
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*[[Ribosomal protein S8|Ribosomal protein S8]]
 
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*[[Ribosomal protein S9|Ribosomal protein S9]]
 
*[[Ribosomal protein THX|Ribosomal protein THX]]
*[[Ribosomal protein THX|Ribosomal protein THX]]
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*[[Ribosome|Ribosome]]
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*[[Ribosome 3D structures|Ribosome 3D structures]]
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== References ==
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==Reference==
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<references/>
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<ref group="xtra">PMID:017940016</ref><references group="xtra"/>
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__TOC__
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</StructureSection>
[[Category: 70S Ribosomes]]
[[Category: 70S Ribosomes]]
[[Category: RCSB PDB Molecule of the Month]]
[[Category: RCSB PDB Molecule of the Month]]

Revision as of 10:24, 29 September 2014

Interactions and Dynamics of the Shine-Dalgarno Helix in the 70S Ribosome. This file, 2QNH, contains the 30S ribosome subunit, two TRNA, and MRNA molecules. 50S ribosome subunit is in the file 1VSP.

2qnh, resolution 3.83Å

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