1ibk: Difference between revisions

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-[[Image:1ibk.png|left|200px]]
+==STRUCTURE OF THE THERMUS THERMOPHILUS 30S RIBOSOMAL SUBUNIT IN COMPLEX WITH THE ANTIBIOTIC PAROMOMYCIN==
+<StructureSection load='1ibk' size='340' side='right' caption='[[1ibk]], [[Resolution|resolution]] 3.31&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1ibk]] is a 22 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. The February 2012 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Aminoglycoside Antibiotics''  by David Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2012_2 10.2210/rcsb_pdb/mom_2012_2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1IBK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1IBK FirstGlance]. <br>
+</td></tr><tr><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PAR:PAROMOMYCIN'>PAR</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>
+<tr><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1fjf|1fjf]], [[1fjg|1fjg]], [[1ibl|1ibl]], [[1ibm|1ibm]]</td></tr>
+<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=1ibk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ibk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ibk RCSB], [http://www.ebi.ac.uk/pdbsum/1ibk PDBsum]</span></td></tr>
+<table>
+== 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/ib/1ibk_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/chain_selection.php?pdb_ID=2ata ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Crystal structures of the 30S ribosomal subunit in complex with messenger RNA and cognate transfer RNA in the A site, both in the presence and absence of the antibiotic paromomycin, have been solved at between 3.1 and 3.3 angstroms resolution. Cognate transfer RNA (tRNA) binding induces global domain movements of the 30S subunit and changes in the conformation of the universally conserved and essential bases A1492, A1493, and G530 of 16S RNA. These bases interact intimately with the minor groove of the first two base pairs between the codon and anticodon, thus sensing Watson-Crick base-pairing geometry and discriminating against near-cognate tRNA. The third, or "wobble," position of the codon is free to accommodate certain noncanonical base pairs. By partially inducing these structural changes, paromomycin facilitates binding of near-cognate tRNAs.
-{{STRUCTURE_1ibk|  PDB=1ibk  |  SCENE=  }}
+Recognition of cognate transfer RNA by the 30S ribosomal subunit.,Ogle JM, Brodersen DE, Clemons WM Jr, Tarry MJ, Carter AP, Ramakrishnan V Science. 2001 May 4;292(5518):897-902. PMID:11340196<ref>PMID:11340196</ref>
-===STRUCTURE OF THE THERMUS THERMOPHILUS 30S RIBOSOMAL SUBUNIT IN COMPLEX WITH THE ANTIBIOTIC PAROMOMYCIN===
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
-{{ABSTRACT_PUBMED_11340196}}
-==About this Structure==
-[[1ibk]] is a 22 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. The February 2012 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Aminoglycoside Antibiotics''  by David Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2012_2 10.2210/rcsb_pdb/mom_2012_2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1IBK OCA].
 ==See Also==
-*[[Ribosomal protein S10|Ribosomal protein S10]]
-*[[Ribosomal protein S11|Ribosomal protein S11]]
-*[[Ribosomal protein S12|Ribosomal protein S12]]
-*[[Ribosomal protein S13|Ribosomal protein S13]]
-*[[Ribosomal protein S14|Ribosomal protein S14]]
-*[[Ribosomal protein S15|Ribosomal protein S15]]
-*[[Ribosomal protein S16|Ribosomal protein S16]]
-*[[Ribosomal protein S17|Ribosomal protein S17]]
-*[[Ribosomal protein S18|Ribosomal protein S18]]
-*[[Ribosomal protein S19|Ribosomal protein S19]]
-*[[Ribosomal protein S2|Ribosomal protein S2]]
-*[[Ribosomal protein S20|Ribosomal protein S20]]
-*[[Ribosomal protein S3|Ribosomal protein S3]]
-*[[Ribosomal protein S4|Ribosomal protein S4]]
-*[[Ribosomal protein S5|Ribosomal protein S5]]
-*[[Ribosomal protein S6|Ribosomal protein S6]]
-*[[Ribosomal protein S7|Ribosomal protein S7]]
-*[[Ribosomal protein S8|Ribosomal protein S8]]
-*[[Ribosomal protein S9|Ribosomal protein S9]]
 *[[Ribosomal protein THX|Ribosomal protein THX]]
-*[[Ribosome|Ribosome]]
+*[[Ribosome 3D structures|Ribosome 3D structures]]
+== References ==
-==Reference==
+<references/>
-<ref group="xtra">PMID:011340196</ref><references group="xtra"/>
+__TOC__
+</StructureSection>
 [[Category: Aminoglycoside Antibiotics]]
 [[Category: RCSB PDB Molecule of the Month]]