4z3s

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'''Unreleased structure'''
 
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The entry 4z3s is ON HOLD until Paper Publication
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==Crystal structure of the Thermus thermophilus 70S ribosome in complex with antibiotic A201A, mRNA and three tRNAs in the A, P and E sites at 2.65A resolution==
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<StructureSection load='4z3s' size='340' side='right'caption='[[4z3s]], [[Resolution|resolution]] 2.65&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[4z3s]] is a 20 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=4Z3S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4Z3S FirstGlance]. <br>
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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]] 2.65&#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=0TD:(3S)-3-(METHYLSULFANYL)-L-ASPARTIC+ACID'>0TD</scene>, <scene name='pdbligand=2MA:2-METHYLADENOSINE-5-MONOPHOSPHATE'>2MA</scene>, <scene name='pdbligand=2MG:2N-METHYLGUANOSINE-5-MONOPHOSPHATE'>2MG</scene>, <scene name='pdbligand=2MU:2,5-DIMETHYLURIDINE-5-MONOPHOSPHATE'>2MU</scene>, <scene name='pdbligand=4M2:3-DEOXY-3-{[(2E)-3-(4-{[(4Z)-6-O-(6-DEOXY-3,4-DI-O-METHYL-ALPHA-D-MANNOPYRANOSYL)-5-O-METHYL-ALPHA-D-THREO-HEX-4-ENOFURANOSYL]OXY}PHENYL)-2-METHYLPROP-2-ENOYL]AMINO}-N,N-DIMETHYLADENOSINE'>4M2</scene>, <scene name='pdbligand=4OC:4N,O2-METHYLCYTIDINE-5-MONOPHOSPHATE'>4OC</scene>, <scene name='pdbligand=4SU:4-THIOURIDINE-5-MONOPHOSPHATE'>4SU</scene>, <scene name='pdbligand=5MC:5-METHYLCYTIDINE-5-MONOPHOSPHATE'>5MC</scene>, <scene name='pdbligand=5MU:5-METHYLURIDINE+5-MONOPHOSPHATE'>5MU</scene>, <scene name='pdbligand=7MG:7N-METHYL-8-HYDROGUANOSINE-5-MONOPHOSPHATE'>7MG</scene>, <scene name='pdbligand=FME:N-FORMYLMETHIONINE'>FME</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=M2G:N2-DIMETHYLGUANOSINE-5-MONOPHOSPHATE'>M2G</scene>, <scene name='pdbligand=MA6:6N-DIMETHYLADENOSINE-5-MONOPHOSHATE'>MA6</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MIA:2-METHYLTHIO-N6-ISOPENTENYL-ADENOSINE-5-MONOPHOSPHATE'>MIA</scene>, <scene name='pdbligand=OMG:O2-METHYLGUANOSINE-5-MONOPHOSPHATE'>OMG</scene>, <scene name='pdbligand=PSU:PSEUDOURIDINE-5-MONOPHOSPHATE'>PSU</scene>, <scene name='pdbligand=UR3:3-METHYLURIDINE-5-MONOPHOSHATE'>UR3</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
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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=4z3s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4z3s OCA], [https://pdbe.org/4z3s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4z3s RCSB], [https://www.ebi.ac.uk/pdbsum/4z3s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4z3s ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/RL2_THET8 RL2_THET8] One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial (By similarity). Makes several contacts with the 16S rRNA (forming bridge B7b) in the 70S ribosome.[HAMAP-Rule:MF_01320_B]
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The increase in multi-drug-resistant bacteria is limiting the effectiveness of currently approved antibiotics, leading to a renewed interest in antibiotics with distinct chemical scaffolds. We have solved the structures of the Thermus thermophilus 70S ribosome with A-, P-, and E-site tRNAs bound and in complex with either the aminocyclitol-containing antibiotic hygromycin A (HygA) or the nucleoside antibiotic A201A. Both antibiotics bind at the peptidyl transferase center and sterically occlude the CCA-end of the A-tRNA from entering the A site of the peptidyl transferase center. Single-molecule Forster resonance energy transfer (smFRET) experiments reveal that HygA and A201A specifically interfere with full accommodation of the A-tRNA, leading to the presence of tRNA accommodation intermediates and thereby inhibiting peptide bond formation. Thus, our results provide not only insight into the mechanism of action of HygA and A201A, but also into the fundamental process of tRNA accommodation during protein synthesis.
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Authors: Polikanov, Y.S., Starosta, A.L., Juette, M.F., Altman, R.B., Terry, D.S., Lu, W., Burnett, B.J., Dinos, G., Reynolds, K., Blanchard, S.C., Steitz, T.A., Wilson, D.N.
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Distinct tRNA Accommodation Intermediates Observed on the Ribosome with the Antibiotics Hygromycin A and A201A.,Polikanov YS, Starosta AL, Juette MF, Altman RB, Terry DS, Lu W, Burnett BJ, Dinos G, Reynolds KA, Blanchard SC, Steitz TA, Wilson DN Mol Cell. 2015 Jun 4;58(5):832-44. doi: 10.1016/j.molcel.2015.04.014. Epub 2015, May 28. PMID:26028538<ref>PMID:26028538</ref>
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Description: Crystal structure of the Thermus thermophilus 70S ribosome in complex with antibiotic A201A, mRNA and three tRNAs in the A, P and E sites at 2.65A resolution
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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[[Category: Unreleased Structures]]
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</div>
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[[Category: Starosta, A.L]]
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<div class="pdbe-citations 4z3s" style="background-color:#fffaf0;"></div>
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[[Category: Polikanov, Y.S]]
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[[Category: Blanchard, S.C]]
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==See Also==
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[[Category: Burnett, B.J]]
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*[[Ribosomal protein THX 3D structures|Ribosomal protein THX 3D structures]]
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[[Category: Terry, D.S]]
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*[[Ribosome 3D structures|Ribosome 3D structures]]
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[[Category: Altman, R.B]]
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*[[Transfer RNA (tRNA)|Transfer RNA (tRNA)]]
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[[Category: Juette, M.F]]
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== References ==
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[[Category: Reynolds, K]]
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<references/>
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[[Category: Lu, W]]
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__TOC__
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[[Category: Dinos, G]]
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</StructureSection>
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[[Category: Steitz, T.A]]
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[[Category: Large Structures]]
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[[Category: Wilson, D.N]]
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[[Category: Thermus thermophilus HB8]]
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[[Category: Altman RB]]
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[[Category: Blanchard SC]]
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[[Category: Burnett BJ]]
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[[Category: Dinos G]]
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[[Category: Juette MF]]
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[[Category: Lu W]]
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[[Category: Polikanov YS]]
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[[Category: Reynolds K]]
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[[Category: Starosta AL]]
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[[Category: Steitz TA]]
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[[Category: Terry DS]]
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[[Category: Wilson DN]]

Current revision

Crystal structure of the Thermus thermophilus 70S ribosome in complex with antibiotic A201A, mRNA and three tRNAs in the A, P and E sites at 2.65A resolution

PDB ID 4z3s

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