This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


3j6b

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (10:10, 21 February 2024) (edit) (undo)
 
(4 intermediate revisions not shown.)
Line 1: Line 1:
==Structure of the yeast mitochondrial large ribosomal subunit==
==Structure of the yeast mitochondrial large ribosomal subunit==
-
<SX load='3j6b' size='340' side='right' viewer='molstar' caption='[[3j6b]], [[Resolution|resolution]] 3.20&Aring;' scene=''>
+
<SX load='3j6b' size='340' side='right' viewer='molstar' caption='[[3j6b]], [[Resolution|resolution]] 3.20&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[3j6b]] is a 40 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. This structure supersedes the now removed PDB entries [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1vw3 1vw3] and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1vw4 1vw4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3J6B OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3J6B FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[3j6b]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. This structure supersedes the now removed PDB entries [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1vw3 1vw3] and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1vw4 1vw4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3J6B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3J6B 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=NA:SODIUM+ION'>NA</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">Electron Microscopy, [[Resolution|Resolution]] 3.2&#8491;</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=3j6b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3j6b OCA], [http://pdbe.org/3j6b PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3j6b RCSB], [http://www.ebi.ac.uk/pdbsum/3j6b PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3j6b ProSAT]</span></td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=3j6b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3j6b OCA], [https://pdbe.org/3j6b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3j6b RCSB], [https://www.ebi.ac.uk/pdbsum/3j6b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3j6b ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
-
[[http://www.uniprot.org/uniprot/RTC6_YEAST RTC6_YEAST]] Probable component of the mitochondrial large ribosomal subunit involved in ribosome biogenesis and translation. May be involved in a process influencing telomere capping.<ref>PMID:9392081</ref> <ref>PMID:18845848</ref> <ref>PMID:20691087</ref> [[http://www.uniprot.org/uniprot/MHR1_YEAST MHR1_YEAST]] Transcription factor involved in regulation of RNA polymerase II-dependent transcription. Also involved in regulation of mitochondrial DNA recombination, maintenance and repair, and generation of homoplasmic cells.<ref>PMID:11121487</ref> <ref>PMID:9736700</ref> <ref>PMID:7664749</ref> <ref>PMID:12198175</ref> <ref>PMID:12034822</ref> <ref>PMID:14565971</ref> <ref>PMID:16337661</ref> [[http://www.uniprot.org/uniprot/RM36_YEAST RM36_YEAST]] Involved in mitochondrial translation. Overexpression suppresses mutations in the COX2 leader peptide-encoding and initiation codon regions.<ref>PMID:11259585</ref> <ref>PMID:15166137</ref> [[http://www.uniprot.org/uniprot/IMG1_YEAST IMG1_YEAST]] Essential for respiration.<ref>PMID:8771712</ref> [[http://www.uniprot.org/uniprot/RM06_YEAST RM06_YEAST]] Indispensable for mitochondrial function.
+
[https://www.uniprot.org/uniprot/RML2_YEAST RML2_YEAST]
-
<div style="background-color:#fffaf0;">
+
-
== Publication Abstract from PubMed ==
+
-
Mitochondria have specialized ribosomes that have diverged from their bacterial and cytoplasmic counterparts. We have solved the structure of the yeast mitoribosomal large subunit using single-particle cryo-electron microscopy. The resolution of 3.2 angstroms enabled a nearly complete atomic model to be built de novo and refined, including 39 proteins, 13 of which are unique to mitochondria, as well as expansion segments of mitoribosomal RNA. The structure reveals a new exit tunnel path and architecture, unique elements of the E site, and a putative membrane docking site.
+
-
 
+
-
Structure of the yeast mitochondrial large ribosomal subunit.,Amunts A, Brown A, Bai XC, Llacer JL, Hussain T, Emsley P, Long F, Murshudov G, Scheres SH, Ramakrishnan V Science. 2014 Mar 28;343(6178):1485-9. doi: 10.1126/science.1249410. PMID:24675956<ref>PMID:24675956</ref>
+
-
 
+
-
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+
-
</div>
+
-
<div class="pdbe-citations 3j6b" style="background-color:#fffaf0;"></div>
+
==See Also==
==See Also==
-
*[[Ribosome 3D structures|Ribosome 3D structures]]
 
*[[Transfer RNA (tRNA)|Transfer RNA (tRNA)]]
*[[Transfer RNA (tRNA)|Transfer RNA (tRNA)]]
-
== References ==
 
-
<references/>
 
__TOC__
__TOC__
</SX>
</SX>
 +
[[Category: Large Structures]]
[[Category: Saccharomyces cerevisiae]]
[[Category: Saccharomyces cerevisiae]]
-
[[Category: Amunts, A]]
+
[[Category: Amunts A]]
-
[[Category: Bai, X C]]
+
[[Category: Bai XC]]
-
[[Category: Brown, A]]
+
[[Category: Brown A]]
-
[[Category: Emsley, P]]
+
[[Category: Emsley P]]
-
[[Category: Hussain, T]]
+
[[Category: Hussain T]]
-
[[Category: Llacer, J L]]
+
[[Category: Llacer JL]]
-
[[Category: Long, F]]
+
[[Category: Long F]]
-
[[Category: Murshudov, G]]
+
[[Category: Murshudov G]]
-
[[Category: Ramakrishnan, V]]
+
[[Category: Ramakrishnan V]]
-
[[Category: Scheres, S H.W]]
+
[[Category: Scheres SHW]]
-
[[Category: Large subunit]]
+
-
[[Category: Mitochondrial ribosome]]
+
-
[[Category: Protein-rna complex]]
+
-
[[Category: Ribosome]]
+

Current revision

Structure of the yeast mitochondrial large ribosomal subunit

3j6b, resolution 3.20Å

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3j6b"
Personal tools