9t1d: Difference between revisions

Line 1:

~~'''Unreleased structure'''~~

~~The entry~~ 9t1d is ~~ON HOLD until Paper~~ Publication

==Cryo-EM reconstruction of undecorated GDP microtubule==

== Structural highlights ==

<table><tr><td colspan='2'>[[9t1d]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Sus_scrofa Sus scrofa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9T1D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=9T1D FirstGlance]. <br>

</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 2.9Å</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=MG:MAGNESIUM+ION'>MG</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=9t1d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9t1d OCA], [https://pdbe.org/9t1d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=9t1d RCSB], [https://www.ebi.ac.uk/pdbsum/9t1d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=9t1d ProSAT]</span></td></tr>

</table>

== Function ==

[https://www.uniprot.org/uniprot/TBA1A_PIG TBA1A_PIG] Tubulin is the major constituent of microtubules. It binds two moles of GTP, one at an exchangeable site on the beta chain and one at a non-exchangeable site on the alpha chain.

== Publication Abstract from PubMed ==

Microtubules are cytoskeletal filaments that are typically characterized by a discontinuous helical lattice of alpha/beta-tubulin heterodimers. Microtubules can also adopt variable lattice architectures both in vitro and in cellular contexts. Pseudo-helical averaging processing strategies have been developed to generate cryo-EM reconstructions of microtubules with and without decorating protein-binding partners, but these pipelines can be difficult to implement for the average user, especially for undecorated filaments. Here, we describe MiCSPARC, a cryo-EM processing pipeline developed around CryoSPARC [Punjani et al. (2017), Nat. Methods, 14, 290-296], which leverages automated particle picking and fast 3D refinement times in CryoSPARC to determine the structures of both decorated and undecorated microtubules. We generate reconstructions of undecorated GDP microtubules, as well as kinesin-1 motor domain-decorated GMPCPP filaments, at resolutions of up to 2.8 A, demonstrating the robustness of the pipeline. Based on its convenient implementation and its ability to routinely generate high-resolution, seam-corrected microtubule reconstructions, MiCSPARC should provide a valuable tool for understanding microtubule dynamics, microtubule-associated proteins and microtubule-targeting agents.

~~Authors:~~ Munoz-Hernandez, H., Wieczorek, M.

A cryo-EM processing pipeline for microtubules using CryoSPARC.,Zhang D, Munoz-Hernandez H, Filipcik P, Sejwal K, Xu Y, Choi SR, Steinmetz MO, Wieczorek M Acta Crystallogr D Struct Biol. 2026 May 1;82(Pt 5):411-420. doi: , 10.1107/S2059798326003062. Epub 2026 Apr 27. PMID:42044018<ref>PMID:42044018</ref>

~~Description~~: ~~Cryo-EM reconstruction of undecorated GDP microtubule~~

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>

[[Category: ~~Unreleased~~ Structures]]

</div>

[[Category: Munoz-Hernandez, H]]

[[Category: Wieczorek, M]]

== References ==

__TOC__

</StructureSection>

[[Category: Large Structures]]

[[Category: Sus scrofa]]

[[Category: Munoz-Hernandez H]]

[[Category: Wieczorek M]]

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@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
-The entry 9t1d is ON HOLD  until Paper Publication
+==Cryo-EM reconstruction of undecorated GDP microtubule==
+<StructureSection load='9t1d' size='340' side='right'caption='[[9t1d]], [[Resolution|resolution]] 2.90&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[9t1d]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Sus_scrofa Sus scrofa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9T1D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=9T1D FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 2.9&#8491;</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=MG:MAGNESIUM+ION'>MG</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=9t1d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9t1d OCA], [https://pdbe.org/9t1d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=9t1d RCSB], [https://www.ebi.ac.uk/pdbsum/9t1d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=9t1d ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/TBA1A_PIG TBA1A_PIG] Tubulin is the major constituent of microtubules. It binds two moles of GTP, one at an exchangeable site on the beta chain and one at a non-exchangeable site on the alpha chain.
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Microtubules are cytoskeletal filaments that are typically characterized by a discontinuous helical lattice of alpha/beta-tubulin heterodimers. Microtubules can also adopt variable lattice architectures both in vitro and in cellular contexts. Pseudo-helical averaging processing strategies have been developed to generate cryo-EM reconstructions of microtubules with and without decorating protein-binding partners, but these pipelines can be difficult to implement for the average user, especially for undecorated filaments. Here, we describe MiCSPARC, a cryo-EM processing pipeline developed around CryoSPARC [Punjani et al. (2017), Nat. Methods, 14, 290-296], which leverages automated particle picking and fast 3D refinement times in CryoSPARC to determine the structures of both decorated and undecorated microtubules. We generate reconstructions of undecorated GDP microtubules, as well as kinesin-1 motor domain-decorated GMPCPP filaments, at resolutions of up to 2.8 A, demonstrating the robustness of the pipeline. Based on its convenient implementation and its ability to routinely generate high-resolution, seam-corrected microtubule reconstructions, MiCSPARC should provide a valuable tool for understanding microtubule dynamics, microtubule-associated proteins and microtubule-targeting agents.
-Authors: Munoz-Hernandez, H., Wieczorek, M.
+A cryo-EM processing pipeline for microtubules using CryoSPARC.,Zhang D, Munoz-Hernandez H, Filipcik P, Sejwal K, Xu Y, Choi SR, Steinmetz MO, Wieczorek M Acta Crystallogr D Struct Biol. 2026 May 1;82(Pt 5):411-420. doi: , 10.1107/S2059798326003062. Epub 2026 Apr 27. PMID:42044018<ref>PMID:42044018</ref>
-Description: Cryo-EM reconstruction of undecorated GDP microtubule
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
-[[Category: Munoz-Hernandez, H]]
+<div class="pdbe-citations 9t1d" style="background-color:#fffaf0;"></div>
-[[Category: Wieczorek, M]]
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
+[[Category: Sus scrofa]]
+[[Category: Munoz-Hernandez H]]
+[[Category: Wieczorek M]]