7x8c: Difference between revisions
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==Crystal structure of a KTSC family protein from Euryarchaeon Methanolobus vulcani== | |||
<StructureSection load='7x8c' size='340' side='right'caption='[[7x8c]], [[Resolution|resolution]] 2.73Å' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[7x8c]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanolobus_vulcani Methanolobus vulcani]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7X8C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7X8C 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]] 2.73Å</td></tr> | |||
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</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=7x8c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7x8c OCA], [https://pdbe.org/7x8c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7x8c RCSB], [https://www.ebi.ac.uk/pdbsum/7x8c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7x8c ProSAT]</span></td></tr> | |||
</table> | |||
== Function == | |||
[https://www.uniprot.org/uniprot/A0A7Z7AYG0_9EURY A0A7Z7AYG0_9EURY] | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
The lysine (K) tRNA synthetase C-terminal (KTSC) domain containing proteins are widely spread in Bacteria, Archaea and Viruses, but the function of this short domain is unclear. The occurrence of the fusion of KTSC domain to a catalytic domain or domains related to DNA or RNA metabolisms suggests its potential role in DNA or RNA binding. Here, we report the characterization of Mvu8s from Methanolobus vulcani, which consists of a single KTSC domain. Mvu8s binds specifically to ssDNA with an affinity approximately 40- and 10-fold higher than those for dsDNA and ssRNA in vitro, respectively. It shows a slight preference to the G-rich DNA sequence but barely binds the A-stretch. Crystal structure of Mvu8s shows that it forms a homo-tetramer, with each monomer composed of a four-strand antiparallel beta-sheet and a helix-turn-helix in the order of beta1-beta2-beta3-alpha1-alpha2-beta4. Four basic residues (R3, R7, K54 and K58) were found to serve important roles in ssDNA-binding. And, the spiral arrangement of the DNA interfaces in Mvu8s homo-tetramer presumably results in ssDNA wrapping. Our results not only offer clues of the functions of the KTSC domain containing proteins but also expand our knowledge on the non-oligonucleotide-binding (OB) fold single-stranded DNA-binding proteins in Archaea. | |||
Biochemical and structural characterization of a KTSC family single-stranded DNA-binding protein from Euryarchaea.,Tian L, Zhu K, Chen Y, Zheng X, Zhang H, Geng Z, Li W, Ding N, Chen J, Dong Y, Cao P, Gong Y, Zhang Z Int J Biol Macromol. 2022 Sep 1;216:618-628. doi: 10.1016/j.ijbiomac.2022.07.015., Epub 2022 Jul 7. PMID:35809674<ref>PMID:35809674</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
[[Category: | </div> | ||
<div class="pdbe-citations 7x8c" style="background-color:#fffaf0;"></div> | |||
==See Also== | |||
*[[Dioxygenase 3D structures|Dioxygenase 3D structures]] | |||
== References == | |||
<references/> | |||
__TOC__ | |||
</StructureSection> | |||
[[Category: Large Structures]] | |||
[[Category: Methanolobus vulcani]] | |||
[[Category: Cao P]] | |||
[[Category: Chen YY]] | |||
[[Category: Gong Y]] | |||
[[Category: Zhang ZF]] | |||
[[Category: Zhu KL]] | |||
Latest revision as of 20:49, 29 November 2023
Crystal structure of a KTSC family protein from Euryarchaeon Methanolobus vulcaniCrystal structure of a KTSC family protein from Euryarchaeon Methanolobus vulcani
Structural highlights
FunctionPublication Abstract from PubMedThe lysine (K) tRNA synthetase C-terminal (KTSC) domain containing proteins are widely spread in Bacteria, Archaea and Viruses, but the function of this short domain is unclear. The occurrence of the fusion of KTSC domain to a catalytic domain or domains related to DNA or RNA metabolisms suggests its potential role in DNA or RNA binding. Here, we report the characterization of Mvu8s from Methanolobus vulcani, which consists of a single KTSC domain. Mvu8s binds specifically to ssDNA with an affinity approximately 40- and 10-fold higher than those for dsDNA and ssRNA in vitro, respectively. It shows a slight preference to the G-rich DNA sequence but barely binds the A-stretch. Crystal structure of Mvu8s shows that it forms a homo-tetramer, with each monomer composed of a four-strand antiparallel beta-sheet and a helix-turn-helix in the order of beta1-beta2-beta3-alpha1-alpha2-beta4. Four basic residues (R3, R7, K54 and K58) were found to serve important roles in ssDNA-binding. And, the spiral arrangement of the DNA interfaces in Mvu8s homo-tetramer presumably results in ssDNA wrapping. Our results not only offer clues of the functions of the KTSC domain containing proteins but also expand our knowledge on the non-oligonucleotide-binding (OB) fold single-stranded DNA-binding proteins in Archaea. Biochemical and structural characterization of a KTSC family single-stranded DNA-binding protein from Euryarchaea.,Tian L, Zhu K, Chen Y, Zheng X, Zhang H, Geng Z, Li W, Ding N, Chen J, Dong Y, Cao P, Gong Y, Zhang Z Int J Biol Macromol. 2022 Sep 1;216:618-628. doi: 10.1016/j.ijbiomac.2022.07.015., Epub 2022 Jul 7. PMID:35809674[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
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