7mjv: Difference between revisions
From Proteopedia
Jump to navigationJump to search
New page: '''Unreleased structure''' The entry 7mjv is ON HOLD Authors: Description: Category: Unreleased Structures |
No edit summary |
||
| (3 intermediate revisions by the same user not shown) | |||
| Line 1: | Line 1: | ||
The | ==MiaB in the complex with s-adenosylmethionine and RNA== | ||
<StructureSection load='7mjv' size='340' side='right'caption='[[7mjv]], [[Resolution|resolution]] 2.24Å' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[7mjv]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacteroides_uniformis Bacteroides uniformis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7MJV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7MJV FirstGlance]. <br> | |||
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.24Å</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=SAM:S-ADENOSYLMETHIONINE'>SAM</scene>, <scene name='pdbligand=ZJS:[(2~{R},3~{S},4~{R},5~{R})-5-[6-(3-methylbut-2-enylamino)purin-9-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl+dihydrogen+phosphate'>ZJS</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=7mjv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7mjv OCA], [https://pdbe.org/7mjv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7mjv RCSB], [https://www.ebi.ac.uk/pdbsum/7mjv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7mjv ProSAT]</span></td></tr> | |||
</table> | |||
== Function == | |||
[https://www.uniprot.org/uniprot/A0A174NUT3_BACUN A0A174NUT3_BACUN] Catalyzes the methylthiolation of N6-(dimethylallyl)adenosine (i(6)A), leading to the formation of 2-methylthio-N6-(dimethylallyl)adenosine (ms(2)i(6)A) at position 37 in tRNAs that read codons beginning with uridine.[ARBA:ARBA00003234][HAMAP-Rule:MF_01864] | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
Numerous post-transcriptional modifications of transfer RNAs have vital roles in translation. The 2-methylthio-N(6)-isopentenyladenosine (ms(2)i(6)A) modification occurs at position 37 (A37) in transfer RNAs that contain adenine in position 36 of the anticodon, and serves to promote efficient A:U codon-anticodon base-pairing and to prevent unintended base pairing by near cognates, thus enhancing translational fidelity(1-4). The ms(2)i(6)A modification is installed onto isopentenyladenosine (i(6)A) by MiaB, a radical S-adenosylmethionine (SAM) methylthiotransferase. As a radical SAM protein, MiaB contains one [Fe4S4]RS cluster used in the reductive cleavage of SAM to form a 5'-deoxyadenosyl 5'-radical, which is responsible for removing the C(2) hydrogen of the substrate(5). MiaB also contains an auxiliary [Fe4S4]aux cluster, which has been implicated(6-9) in sulfur transfer to C(2) of i(6)A37. How this transfer takes place is largely unknown. Here we present several structures of MiaB from Bacteroides uniformis. These structures are consistent with a two-step mechanism, in which one molecule of SAM is first used to methylate a bridging micro-sulfido ion of the auxiliary cluster. In the second step, a second SAM molecule is cleaved to a 5'-deoxyadenosyl 5'-radical, which abstracts the C(2) hydrogen of the substrate but only after C(2) has undergone rehybridization from sp(2) to sp(3). This work advances our understanding of how enzymes functionalize inert C-H bonds with sulfur. | |||
Structural basis for tRNA methylthiolation by the radical SAM enzyme MiaB.,Esakova OA, Grove TL, Yennawar NH, Arcinas AJ, Wang B, Krebs C, Almo SC, Booker SJ Nature. 2021 Sep;597(7877):566-570. doi: 10.1038/s41586-021-03904-6. Epub 2021, Sep 15. PMID:34526715<ref>PMID:34526715</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
[[Category: | </div> | ||
<div class="pdbe-citations 7mjv" style="background-color:#fffaf0;"></div> | |||
== References == | |||
<references/> | |||
__TOC__ | |||
</StructureSection> | |||
[[Category: Bacteroides uniformis]] | |||
[[Category: Large Structures]] | |||
[[Category: Almo SC]] | |||
[[Category: Arcinas AJ]] | |||
[[Category: Booker SJ]] | |||
[[Category: Esakova OA]] | |||
[[Category: Grove TL]] | |||
[[Category: Krebs C]] | |||
[[Category: Wang B]] | |||
[[Category: Yennawar NH]] | |||
