7evd: Difference between revisions
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==Odinarchaeota tubulin (OdinTubulin) H393D mutant, in a protofilament arrangement, bound to 53% GTP/47% and 2 Na+== | ==Odinarchaeota tubulin (OdinTubulin) H393D mutant, in a protofilament arrangement, bound to 53% GTP/47% and 2 Na+== | ||
<StructureSection load='7evd' size='340' side='right'caption='[[7evd]]' scene=''> | <StructureSection load='7evd' size='340' side='right'caption='[[7evd]], [[Resolution|resolution]] 1.45Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7EVD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7EVD FirstGlance]. <br> | <table><tr><td colspan='2'>[[7evd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Candidatus_Odinarchaeota_archaeon_LCB_4 Candidatus Odinarchaeota archaeon LCB_4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7EVD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7EVD FirstGlance]. <br> | ||
</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=7evd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7evd OCA], [https://pdbe.org/7evd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7evd RCSB], [https://www.ebi.ac.uk/pdbsum/7evd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7evd ProSAT]</span></td></tr> | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.45Å</td></tr> | ||
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <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=7evd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7evd OCA], [https://pdbe.org/7evd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7evd RCSB], [https://www.ebi.ac.uk/pdbsum/7evd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7evd ProSAT]</span></td></tr> | |||
</table> | </table> | ||
== Function == | |||
[https://www.uniprot.org/uniprot/A0A1Q9N9N5_ODILC A0A1Q9N9N5_ODILC] | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
Tubulins are critical for the internal organization of eukaryotic cells, and understanding their emergence is an important question in eukaryogenesis. Asgard archaea are the closest known prokaryotic relatives to eukaryotes. Here, we elucidated the apo and nucleotide-bound x-ray structures of an Asgard tubulin from hydrothermal living Odinarchaeota (OdinTubulin). The guanosine 5'-triphosphate (GTP)-bound structure resembles a microtubule protofilament, with GTP bound between subunits, coordinating the "+" end subunit through a network of water molecules and unexpectedly by two cations. A water molecule is located suitable for GTP hydrolysis. Time course crystallography and electron microscopy revealed conformational changes on GTP hydrolysis. OdinTubulin forms tubules at high temperatures, with short curved protofilaments coiling around the tubule circumference, more similar to FtsZ, rather than running parallel to its length, as in microtubules. Thus, OdinTubulin represents an evolutionary stage intermediate between prokaryotic FtsZ and eukaryotic microtubule-forming tubulins. | |||
Structure and dynamics of Odinarchaeota tubulin and the implications for eukaryotic microtubule evolution.,Akil C, Ali S, Tran LT, Gaillard J, Li W, Hayashida K, Hirose M, Kato T, Oshima A, Fujishima K, Blanchoin L, Narita A, Robinson RC Sci Adv. 2022 Mar 25;8(12):eabm2225. doi: 10.1126/sciadv.abm2225. Epub 2022 Mar, 25. PMID:35333570<ref>PMID:35333570</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
</div> | |||
<div class="pdbe-citations 7evd" style="background-color:#fffaf0;"></div> | |||
== References == | |||
<references/> | |||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Candidatus Odinarchaeota archaeon LCB_4]] | |||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
[[Category: Akil C]] | [[Category: Akil C]] | ||
[[Category: Robinson RC]] | [[Category: Robinson RC]] | ||
[[Category: Tran LT]] | [[Category: Tran LT]] | ||
Latest revision as of 20:04, 29 November 2023
Odinarchaeota tubulin (OdinTubulin) H393D mutant, in a protofilament arrangement, bound to 53% GTP/47% and 2 Na+Odinarchaeota tubulin (OdinTubulin) H393D mutant, in a protofilament arrangement, bound to 53% GTP/47% and 2 Na+
Structural highlights
FunctionPublication Abstract from PubMedTubulins are critical for the internal organization of eukaryotic cells, and understanding their emergence is an important question in eukaryogenesis. Asgard archaea are the closest known prokaryotic relatives to eukaryotes. Here, we elucidated the apo and nucleotide-bound x-ray structures of an Asgard tubulin from hydrothermal living Odinarchaeota (OdinTubulin). The guanosine 5'-triphosphate (GTP)-bound structure resembles a microtubule protofilament, with GTP bound between subunits, coordinating the "+" end subunit through a network of water molecules and unexpectedly by two cations. A water molecule is located suitable for GTP hydrolysis. Time course crystallography and electron microscopy revealed conformational changes on GTP hydrolysis. OdinTubulin forms tubules at high temperatures, with short curved protofilaments coiling around the tubule circumference, more similar to FtsZ, rather than running parallel to its length, as in microtubules. Thus, OdinTubulin represents an evolutionary stage intermediate between prokaryotic FtsZ and eukaryotic microtubule-forming tubulins. Structure and dynamics of Odinarchaeota tubulin and the implications for eukaryotic microtubule evolution.,Akil C, Ali S, Tran LT, Gaillard J, Li W, Hayashida K, Hirose M, Kato T, Oshima A, Fujishima K, Blanchoin L, Narita A, Robinson RC Sci Adv. 2022 Mar 25;8(12):eabm2225. doi: 10.1126/sciadv.abm2225. Epub 2022 Mar, 25. PMID:35333570[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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