1xmq: Difference between revisions

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-[[Image:1xmq.gif|left|200px]]
- {{Structure
+==Crystal Structure of t6A37-ASLLysUUU AAA-mRNA Bound to the Decoding Center==
-|PDB= 1xmq |SIZE=350|CAPTION= <scene name='initialview01'>1xmq</scene>, resolution 3.0&Aring;
+<StructureSection load='1xmq' size='340' side='right'caption='[[1xmq]], [[Resolution|resolution]] 3.00&Aring;' scene=''>
-|SITE=
+== Structural highlights ==
-|LIGAND= <scene name='pdbligand=PAR:PAROMOMYCIN'>PAR</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene> and <scene name='pdbligand=ZN:ZINC ION'>ZN</scene>
+<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>
-|ACTIVITY=
+</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>
-|GENE=
+<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>
-'''Crystal Structure of t6A37-ASLLysUUU AAA-mRNA Bound to the Decoding Center'''
+==See Also==
+*[[Ribosomal protein THX 3D structures|Ribosomal protein THX 3D structures]]
+__TOC__
-==Overview==
+</StructureSection>
-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.
+[[Category: Large Structures]]
-==About this Structure==
-XMQ is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XMQ OCA].
-==Reference==
-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://www.ncbi.nlm.nih.gov/pubmed/15558052 15558052]
-[[Category: Protein complex]]
 [[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://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 15:11:53 2008''