4dr1: Difference between revisions

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-{{Large structure}}
+==Crystal structure of the apo 30S ribosomal subunit from Thermus thermophilus (HB8)==
-{{STRUCTURE_4dr1|  PDB=4dr1  |  SCENE=  }}
+<StructureSection load='4dr1' size='340' side='right' caption='[[4dr1]], [[Resolution|resolution]] 3.60&Aring;' scene=''>
-===Crystal structure of the apo 30S ribosomal subunit from Thermus thermophilus (HB8)===
+== Structural highlights ==
-{{ABSTRACT_PUBMED_23322043}}
+<table><tr><td colspan='2'>[[4dr1]] is a 21 chain structure with sequence 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=4DR1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4DR1 FirstGlance]. <br>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
+<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=0TD:(3S)-3-(METHYLSULFANYL)-L-ASPARTIC+ACID'>0TD</scene>, <scene name='pdbligand=2MG:2N-METHYLGUANOSINE-5-MONOPHOSPHATE'>2MG</scene>, <scene name='pdbligand=4OC:4N,O2-METHYLCYTIDINE-5-MONOPHOSPHATE'>4OC</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>, <scene name='pdbligand=UR3:3-METHYLURIDINE-5-MONOPHOSHATE'>UR3</scene></td></tr>
+<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4dr2|4dr2]], [[4dr3|4dr3]], [[4dr4|4dr4]], [[4dr5|4dr5]], [[4dr6|4dr6]], [[4dr7|4dr7]]</td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4dr1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4dr1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4dr1 RCSB], [http://www.ebi.ac.uk/pdbsum/4dr1 PDBsum]</span></td></tr>
+</table>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+During protein synthesis, the ribosome selects aminoacyl-transfer RNAs with anticodons matching the messenger RNA codon present in the A site of the small ribosomal subunit. The aminoglycoside antibiotic streptomycin disrupts decoding by binding close to the site of codon recognition. Here we use X-ray crystallography to define the impact of streptomycin on the decoding site of the Thermus thermophilus 30S ribosomal subunit in complexes with cognate or near-cognate anticodon stem-loop analogues and messenger RNA. Our crystal structures display a significant local distortion of 16S ribosomal RNA induced by streptomycin, including the crucial bases A1492 and A1493 that participate directly in codon recognition. Consistent with kinetic data, we observe that streptomycin stabilizes the near-cognate anticodon stem-loop analogue complex, while destabilizing the cognate anticodon stem-loop analogue complex. These data reveal how streptomycin disrupts the recognition of cognate anticodon stem-loop analogues and yet improves recognition of a near-cognate anticodon stem-loop analogue.
-==About this Structure==
+A structural basis for streptomycin-induced misreading of the genetic code.,Demirci H, Murphy F 4th, Murphy E, Gregory ST, Dahlberg AE, Jogl G Nat Commun. 2013 Jan 15;4:1355. doi: 10.1038/ncomms2346. PMID:23322043<ref>PMID:23322043</ref>
-[[4dr1]] is a 21 chain structure with sequence 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=4DR1 OCA].
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
 ==See Also==
-*[[Ribosomal protein S10|Ribosomal protein S10]]
+*[[Ribosomal protein THX|Ribosomal protein THX]]
-*[[Ribosomal protein S11|Ribosomal protein S11]]
+*[[Ribosome 3D structures|Ribosome 3D structures]]
-*[[Ribosomal protein S2|Ribosomal protein S2]]
+== References ==
-*[[Ribosomal protein S3|Ribosomal protein S3]]
+<references/>
-*[[Ribosomal protein S5|Ribosomal protein S5]]
+__TOC__
-*[[Ribosomal protein S6|Ribosomal protein S6]]
+</StructureSection>
-*[[Ribosomal protein S7|Ribosomal protein S7]]
-*[[Ribosomal protein S8|Ribosomal protein S8]]
-*[[Ribosomal protein S9|Ribosomal protein S9]]
 [[Category: Thermus thermophilus]]
-[[Category: Dahlberg, A E.]]
+[[Category: Dahlberg, A E]]
-[[Category: Demirci, H.]]
+[[Category: Demirci, H]]
-[[Category: Gregory, S T.]]
+[[Category: Gregory, S T]]
-[[Category: IV, F Murphy.]]
+[[Category: IV, F Murphy]]
-[[Category: Jogl, G.]]
+[[Category: Jogl, G]]
-[[Category: Murphy, E.]]
+[[Category: Murphy, E]]
 [[Category: Antibiotic resistance]]
 [[Category: Decoding]]