4v5d: Difference between revisions
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== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[4v5d]] is a 20 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB8 Thermus thermophilus HB8]. This structure supersedes the now removed PDB entries [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2wdk 2wdk], [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2wdl 2wdl], [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2wdm 2wdm] and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2wdn 2wdn]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4V5D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4V5D FirstGlance]. <br> | <table><tr><td colspan='2'>[[4v5d]] is a 20 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB8 Thermus thermophilus HB8]. This structure supersedes the now removed PDB entries [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2wdk 2wdk], [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2wdl 2wdl], [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2wdm 2wdm] and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2wdn 2wdn]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4V5D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4V5D FirstGlance]. <br> | ||
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=8AN:3-AMINO-3-DEOXYADENOSINE+5-(DIHYDROGEN+PHOSPHATE)'>8AN</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PAR:PAROMOMYCIN'>PAR</scene>, <scene name='pdbligand=PHA:PHENYLALANINAL'>PHA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr> | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.5Å</td></tr> | ||
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=8AN:3-AMINO-3-DEOXYADENOSINE+5-(DIHYDROGEN+PHOSPHATE)'>8AN</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PAR:PAROMOMYCIN'>PAR</scene>, <scene name='pdbligand=PHA:PHENYLALANINAL'>PHA</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=4v5d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4v5d OCA], [https://pdbe.org/4v5d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4v5d RCSB], [https://www.ebi.ac.uk/pdbsum/4v5d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4v5d ProSAT]</span></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=4v5d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4v5d OCA], [https://pdbe.org/4v5d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4v5d RCSB], [https://www.ebi.ac.uk/pdbsum/4v5d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4v5d ProSAT]</span></td></tr> | ||
</table> | </table> | ||
Latest revision as of 13:40, 10 January 2024
Structure of the Thermus thermophilus 70S ribosome in complex with mRNA, paromomycin, acylated A- and P-site tRNAs, and E-site tRNA.Structure of the Thermus thermophilus 70S ribosome in complex with mRNA, paromomycin, acylated A- and P-site tRNAs, and E-site tRNA.
Structural highlights
FunctionRS2_THET8 Spans the head-body hinge region of the 30S subunit. Is loosely associated with the 30S subunit.[HAMAP-Rule:MF_00291_B] Publication Abstract from PubMedProtein synthesis is catalyzed in the peptidyl transferase center (PTC), located in the large (50S) subunit of the ribosome. No high-resolution structure of the intact ribosome has contained a complete active site including both A- and P-site tRNAs. In addition, although past structures of the 50S subunit have found no ordered proteins at the PTC, biochemical evidence suggests that specific proteins are capable of interacting with the 3' ends of tRNA ligands. Here we present structures, at 3.6-A and 3.5-A resolution respectively, of the 70S ribosome in complex with A- and P-site tRNAs that mimic pre- and post-peptidyl-transfer states. These structures demonstrate that the PTC is very similar between the 50S subunit and the intact ribosome. They also reveal interactions between the ribosomal proteins L16 and L27 and the tRNA substrates, helping to elucidate the role of these proteins in peptidyl transfer. Insights into substrate stabilization from snapshots of the peptidyl transferase center of the intact 70S ribosome.,Voorhees RM, Weixlbaumer A, Loakes D, Kelley AC, Ramakrishnan V Nat Struct Mol Biol. 2009 May;16(5):528-33. Epub 2009 Apr 12. PMID:19363482[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See Also
References
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