2uxb

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{{Seed}}
 
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[[Image:2uxb.png|left|200px]]
 
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==Crystal structure of an extended tRNA anticodon stem loop in complex with its cognate mRNA GGGU in the context of the Thermus thermophilus 30S subunit.==
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The line below this paragraph, containing "STRUCTURE_2uxb", creates the "Structure Box" on the page.
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<StructureSection load='2uxb' size='340' side='right'caption='[[2uxb]], [[Resolution|resolution]] 3.10&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[2uxb]] is a 10 chain structure with sequence from [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=2UXB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2UXB FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.1&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PAR:PAROMOMYCIN'>PAR</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
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{{STRUCTURE_2uxb| PDB=2uxb | SCENE= }}
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2uxb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2uxb OCA], [https://pdbe.org/2uxb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2uxb RCSB], [https://www.ebi.ac.uk/pdbsum/2uxb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2uxb ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/RS7_THET8 RS7_THET8] One of the primary rRNA binding proteins, it binds directly to 3'-end of the 16S rRNA where it nucleates assembly of the head domain of the 30S subunit. Is located at the subunit interface close to the decoding center. Binds mRNA and the E site tRNA blocking its exit path in the ribosome. This blockage implies that this section of the ribosome must be able to move to release the deacetylated tRNA.[HAMAP-Rule:MF_00480_B]
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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/ux/2uxb_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/main_output.php?pdb_ID=2uxb 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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During translation, some +1 frameshift mRNA sites are decoded by frameshift suppressor tRNAs that contain an extra base in their anticodon loops. Similarly engineered tRNAs have been used to insert nonnatural amino acids into proteins. Here, we report crystal structures of two anticodon stem-loops (ASLs) from tRNAs known to facilitate +1 frameshifting bound to the 30S ribosomal subunit with their cognate mRNAs. ASL(CCCG) and ASL(ACCC) (5'-3' nomenclature) form unpredicted anticodon-codon interactions where the anticodon base 34 at the wobble position contacts either the fourth codon base or the third and fourth codon bases. In addition, we report the structure of ASL(ACGA) bound to the 30S ribosomal subunit with its cognate mRNA. The tRNA containing this ASL was previously shown to be unable to facilitate +1 frameshifting in competition with normal tRNAs (Hohsaka et al. 2001), and interestingly, it displays a normal anticodon-codon interaction. These structures show that the expanded anticodon loop of +1 frameshift promoting tRNAs are flexible enough to adopt conformations that allow three bases of the anticodon to span four bases of the mRNA. Therefore it appears that normal triplet pairing is not an absolute constraint of the decoding center.
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===CRYSTAL STRUCTURE OF AN EXTENDED TRNA ANTICODON STEM LOOP IN COMPLEX WITH ITS COGNATE MRNA GGGU IN THE CONTEXT OF THE THERMUS THERMOPHILUS 30S SUBUNIT.===
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Structures of tRNAs with an expanded anticodon loop in the decoding center of the 30S ribosomal subunit.,Dunham CM, Selmer M, Phelps SS, Kelley AC, Suzuki T, Joseph S, Ramakrishnan V RNA. 2007 Jun;13(6):817-23. Epub 2007 Apr 6. PMID:17416634<ref>PMID:17416634</ref>
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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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<div class="pdbe-citations 2uxb" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_17416634}}, adds the Publication Abstract to the page
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*[[Ribosomal protein THX 3D structures|Ribosomal protein THX 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 17416634 is the PubMed ID number.
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*[[Ribosome 3D structures|Ribosome 3D structures]]
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== References ==
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{{ABSTRACT_PUBMED_17416634}}
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<references/>
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__TOC__
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==About this Structure==
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</StructureSection>
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2UXB 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=2UXB OCA].
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[[Category: Large Structures]]
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[[Category: Thermus thermophilus HB8]]
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==Reference==
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[[Category: Dunham CM]]
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Structures of tRNAs with an expanded anticodon loop in the decoding center of the 30S ribosomal subunit., Dunham CM, Selmer M, Phelps SS, Kelley AC, Suzuki T, Joseph S, Ramakrishnan V, RNA. 2007 Jun;13(6):817-23. Epub 2007 Apr 6. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17416634 17416634]
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[[Category: Joseph S]]
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[[Category: Protein complex]]
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[[Category: Kelley AC]]
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[[Category: Thermus thermophilus]]
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[[Category: Phelps SS]]
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[[Category: Dunham, C M.]]
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[[Category: Ramakrishnan V]]
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[[Category: Joseph, S.]]
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[[Category: Selmer M]]
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[[Category: Kelley, A C.]]
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[[Category: Suzuki T]]
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[[Category: Phelps, S S.]]
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[[Category: Ramakrishnan, V.]]
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[[Category: Selmer, M.]]
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[[Category: Suzuki, T.]]
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[[Category: 30s ribosomal subunit]]
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[[Category: A site]]
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[[Category: Anticodon]]
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[[Category: Codon]]
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[[Category: Coiled coil]]
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[[Category: Decoding]]
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[[Category: Frameshift]]
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[[Category: Frameshift suppressor trna]]
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[[Category: Messenger rna]]
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[[Category: Metal-binding]]
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[[Category: Mrna]]
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[[Category: Paromomycin]]
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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: Rna-binding]]
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[[Category: Rrna-binding]]
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[[Category: Stem-loop]]
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[[Category: Transfer rna]]
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[[Category: Trna]]
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[[Category: Trna-binding]]
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[[Category: Zinc]]
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[[Category: Zinc-finger]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Jul 27 13:17:18 2008''
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Current revision

Crystal structure of an extended tRNA anticodon stem loop in complex with its cognate mRNA GGGU in the context of the Thermus thermophilus 30S subunit.

PDB ID 2uxb

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