6rw5: Difference between revisions

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-'''Unreleased structure'''
-The entry 6rw5 is ON HOLD
+==Structure of human mitochondrial 28S ribosome in complex with mitochondrial IF2 and IF3==
+<StructureSection load='6rw5' size='340' side='right'caption='[[6rw5]], [[Resolution|resolution]] 3.14&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[6rw5]] is a 32 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human] and [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6RW5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6RW5 FirstGlance]. <br>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene>, <scene name='pdbligand=GNP:PHOSPHOAMINOPHOSPHONIC+ACID-GUANYLATE+ESTER'>GNP</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=SPM:SPERMINE'>SPM</scene>, <scene name='pdbligand=SRY:STREPTOMYCIN'>SRY</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=5MC:5-METHYLCYTIDINE-5-MONOPHOSPHATE'>5MC</scene>, <scene name='pdbligand=5MU:5-METHYLURIDINE+5-MONOPHOSPHATE'>5MU</scene>, <scene name='pdbligand=AYA:N-ACETYLALANINE'>AYA</scene>, <scene name='pdbligand=B8T:'>B8T</scene>, <scene name='pdbligand=MA6:6N-DIMETHYLADENOSINE-5-MONOPHOSHATE'>MA6</scene></td></tr>
+<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">MTIF2 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN]), MTIF3, DC38 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=6rw5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6rw5 OCA], [https://pdbe.org/6rw5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6rw5 RCSB], [https://www.ebi.ac.uk/pdbsum/6rw5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6rw5 ProSAT]</span></td></tr>
+</table>
+== Disease ==
+[[https://www.uniprot.org/uniprot/RT22_HUMAN RT22_HUMAN]] Hypotonia with lactic acidemia and hyperammonemia. The disease is caused by mutations affecting the gene represented in this entry. [[https://www.uniprot.org/uniprot/RT16_HUMAN RT16_HUMAN]] Combined oxidative phosphorylation defect type 2. The disease is caused by mutations affecting the gene represented in this entry.
+== Function ==
+[[https://www.uniprot.org/uniprot/IF3M_HUMAN IF3M_HUMAN]] IF-3 binds to the 28S ribosomal subunit and shifts the equilibrum between 55S ribosomes and their 39S and 28S subunits in favor of the free subunits, thus enhancing the availability of 28S subunits on which protein synthesis initiation begins.<ref>PMID:12095986</ref>  [[https://www.uniprot.org/uniprot/IF2M_HUMAN IF2M_HUMAN]] One of the essential components for the initiation of protein synthesis. Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex. [[https://www.uniprot.org/uniprot/AKIP_HUMAN AKIP_HUMAN]] May act as a negative regulator of Aurora-A kinase, by down-regulation through proteasome-dependent degradation. [[https://www.uniprot.org/uniprot/RT29_HUMAN RT29_HUMAN]] Involved in mediating interferon-gamma-induced cell death. [[https://www.uniprot.org/uniprot/PTCD3_HUMAN PTCD3_HUMAN]] Mitochondrial RNA-binding protein that has a role in mitochondrial translation.<ref>PMID:19427859</ref>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Translation initiation in human mitochondria relies upon specialized mitoribosomes and initiation factors, mtIF2 and mtIF3, which have diverged from their bacterial counterparts. Here we report two distinct mitochondrial pre-initiation assembly steps involving those factors. Single-particle cryo-EM revealed that in the first step, interactions between mitochondria-specific protein mS37 and mtIF3 keep the small mitoribosomal subunit in a conformation favorable for a subsequent accommodation of mtIF2 in the second step. Combination with fluorescence cross-correlation spectroscopy analyses suggests that mtIF3 promotes complex assembly without mRNA or initiator tRNA binding, where exclusion is achieved by the N-terminal and C-terminal domains of mtIF3. Finally, the association of large mitoribosomal subunit is required for initiator tRNA and leaderless mRNA recruitment to form a stable initiation complex. These data reveal fundamental aspects of mammalian protein synthesis that are specific to mitochondria.
-Authors:
+Distinct pre-initiation steps in human mitochondrial translation.,Khawaja A, Itoh Y, Remes C, Spahr H, Yukhnovets O, Hofig H, Amunts A, Rorbach J Nat Commun. 2020 Jun 10;11(1):2932. doi: 10.1038/s41467-020-16503-2. PMID:32522994<ref>PMID:32522994</ref>
-Description:
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
+<div class="pdbe-citations 6rw5" style="background-color:#fffaf0;"></div>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Homo sapiens]]
+[[Category: Human]]
+[[Category: Large Structures]]
+[[Category: Amunts, A]]
+[[Category: Itoh, Y]]
+[[Category: Khawaja, A]]
+[[Category: Rorbach, J]]
+[[Category: Initiation complex]]
+[[Category: Initiation factor]]
+[[Category: Ribosomal small subunit]]
+[[Category: Ribosome]]