3vkh

From Proteopedia

(Difference between revisions)

Current revision

X-ray structure of a functional full-length dynein motor domain

Structural highlights

3vkh is a 2 chain structure with sequence from Dictyostelium discoideum. This structure supersedes the now removed PDB entry 3ay1. The August 2014 RCSB PDB Molecule of the Month feature on Dynein by David Goodsell is 10.2210/rcsb_pdb/mom_2014_8. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 3.8Å
Ligands:
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

DYHC_DICDI Cytoplasmic dynein acts as a motor for the intracellular retrograde motility of vesicles and organelles along microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP.

Publication Abstract from PubMed

Dyneins are microtubule-based AAA(+) motor complexes that power ciliary beating, cell division, cell migration and intracellular transport. Here we report the most complete structure obtained so far, to our knowledge, of the 380-kDa motor domain of Dictyostelium discoideum cytoplasmic dynein at 2.8 A resolution; the data are reliable enough to discuss the structure and mechanism at the level of individual amino acid residues. Features that can be clearly visualized at this resolution include the coordination of ADP in each of four distinct nucleotide-binding sites in the ring-shaped AAA(+) ATPase unit, a newly identified interaction interface between the ring and mechanical linker, and junctional structures between the ring and microtubule-binding stalk, all of which should be critical for the mechanism of dynein motility. We also identify a long-range allosteric communication pathway between the primary ATPase and the microtubule-binding sites. Our work provides a framework for understanding the mechanism of dynein-based motility.

The 2.8 A crystal structure of the dynein motor domain.,Kon T, Oyama T, Shimo-Kon R, Imamula K, Shima T, Sutoh K, Kurisu G Nature. 2012 Mar 7;484(7394):345-50. doi: 10.1038/nature10955. PMID:22398446^[1]

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

References

↑ Kon T, Oyama T, Shimo-Kon R, Imamula K, Shima T, Sutoh K, Kurisu G. The 2.8 A crystal structure of the dynein motor domain. Nature. 2012 Mar 7;484(7394):345-50. doi: 10.1038/nature10955. PMID:22398446 doi:http://dx.doi.org/10.1038/nature10955

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 See Also
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3vkh"

@@ Line 3: / Line 3: @@
 <StructureSection load='3vkh' size='340' side='right'caption='[[3vkh]], [[Resolution|resolution]] 3.80&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3vkh]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Dicdi Dicdi]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3ay1 3ay1]. The August 2014 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Dynein''  by David Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2014_8 10.2210/rcsb_pdb/mom_2014_8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VKH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VKH FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3vkh]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Dictyostelium_discoideum Dictyostelium discoideum]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3ay1 3ay1]. The August 2014 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Dynein''  by David Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2014_8 10.2210/rcsb_pdb/mom_2014_8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VKH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VKH FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene></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]] 3.8&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3ay1|3ay1]], [[3vkg|3vkg]]</div></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">DDB_G0276355, dhcA ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=44689 DICDI])</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=3vkh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vkh OCA], [https://pdbe.org/3vkh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vkh RCSB], [https://www.ebi.ac.uk/pdbsum/3vkh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vkh ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[https://www.uniprot.org/uniprot/DYHC_DICDI DYHC_DICDI]] Cytoplasmic dynein acts as a motor for the intracellular retrograde motility of vesicles and organelles along microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP.
+[https://www.uniprot.org/uniprot/DYHC_DICDI DYHC_DICDI] Cytoplasmic dynein acts as a motor for the intracellular retrograde motility of vesicles and organelles along microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP.
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 27: / Line 26: @@
 __TOC__
 </StructureSection>
-[[Category: Dicdi]]
+[[Category: Dictyostelium discoideum]]
 [[Category: Dynein]]
 [[Category: Large Structures]]
 [[Category: RCSB PDB Molecule of the Month]]
-[[Category: Kon, T]]
+[[Category: Kon T]]
-[[Category: Kurisu, G]]
+[[Category: Kurisu G]]
-[[Category: Oyama, T]]
+[[Category: Oyama T]]
-[[Category: Shimo-Kon, R]]
+[[Category: Shimo-Kon R]]
-[[Category: Suto, K]]
+[[Category: Suto K]]
-[[Category: Aaa+ protein]]
-[[Category: Microtuble]]
-[[Category: Molecular motor]]
-[[Category: Motor protein]]

3vkh

From Proteopedia

Current revision

X-ray structure of a functional full-length dynein motor domain

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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