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New page: left|200px<br /><applet load="1xmq" size="450" color="white" frame="true" align="right" spinBox="true" caption="1xmq, resolution 3.0Å" /> '''Crystal Structure of ...
 
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[[Image:1xmq.gif|left|200px]]<br /><applet load="1xmq" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1xmq, resolution 3.0&Aring;" />
'''Crystal Structure of t6A37-ASLLysUUU AAA-mRNA Bound to the Decoding Center'''<br />


==Overview==
==Crystal Structure of t6A37-ASLLysUUU AAA-mRNA Bound to the Decoding Center==
The natural modification of specific nucleosides in many tRNAs is, essential during decoding of mRNA by the ribosome. For example, tRNA(Lys)(UUU) requires the modification N6-threonylcarbamoyladenosine at, position 37 (t(6)A37), adjacent and 3' to the anticodon, to bind AAA in, the A site of the ribosomal 30S subunit. Moreover, it can only bind both, AAA and AAG lysine codons when doubly modified with t(6)A37 and either, 5-methylaminomethyluridine or 2-thiouridine at the wobble position, (mnm(5)U34 or s(2)U34). Here we report crystal structures of modified tRNA, anticodon stem-loops bound to the 30S ribosomal subunit with lysine codons, in the A site. These structures allow the rationalization of how, modifications in the anticodon loop enable decoding of both lysine codons, AAA and AAG.
<StructureSection load='1xmq' size='340' side='right'caption='[[1xmq]], [[Resolution|resolution]] 3.00&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1xmq]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus] and [https://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=1XMQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XMQ FirstGlance]. <br>
</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&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PAR:PAROMOMYCIN'>PAR</scene>, <scene name='pdbligand=T6A:N-[N-(9-B-D-RIBOFURANOSYLPURIN-6-YL)CARBAMOYL]THREONINE-5-MONOPHOSPHATE'>T6A</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1xmq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xmq OCA], [https://pdbe.org/1xmq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xmq RCSB], [https://www.ebi.ac.uk/pdbsum/1xmq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xmq ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/RS2_THET8 RS2_THET8] Spans the head-body hinge region of the 30S subunit. Is loosely associated with the 30S subunit.[HAMAP-Rule:MF_00291_B]
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xm/1xmq_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
    <text>to colour the structure by Evolutionary Conservation</text>
  </jmolCheckbox>
</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/main_output.php?pdb_ID=1xmq ConSurf].
<div style="clear:both"></div>


==About this Structure==
==See Also==
1XMQ is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus] with PAR, MG and ZN as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1XMQ OCA].
*[[Ribosomal protein THX 3D structures|Ribosomal protein THX 3D structures]]
 
__TOC__
==Reference==
</StructureSection>
The role of modifications in codon discrimination by tRNA(Lys)UUU., Murphy FV 4th, Ramakrishnan V, Malkiewicz A, Agris PF, Nat Struct Mol Biol. 2004 Dec;11(12):1186-91. Epub 2004 Nov 21. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15558052 15558052]
[[Category: Large Structures]]
[[Category: Protein complex]]
[[Category: Thermus thermophilus]]
[[Category: Thermus thermophilus]]
[[Category: Agris, P.F.]]
[[Category: Thermus thermophilus HB8]]
[[Category: Malkiewicz, A.]]
[[Category: Agris PF]]
[[Category: Murphy, F.V.]]
[[Category: Malkiewicz A]]
[[Category: Ramakrishnan, V.]]
[[Category: Murphy FV]]
[[Category: MG]]
[[Category: Ramakrishnan V]]
[[Category: PAR]]
[[Category: ZN]]
[[Category: decoding]]
[[Category: modified trna]]
[[Category: ribosome]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 06:11:14 2007''

Latest revision as of 06:19, 3 April 2024

Crystal Structure of t6A37-ASLLysUUU AAA-mRNA Bound to the Decoding Center

1xmq, resolution 3.00Å

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