3eks

From Proteopedia

(Difference between revisions)

Revision as of 13:13, 26 July 2023

Crystal Structure of Monomeric Actin bound to Cytochalasin D

Structural highlights

3eks is a 1 chain structure with sequence from Drosophila melanogaster. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.8Å
Ligands:	, ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

ACT1_DROME Actins are highly conserved proteins that are involved in various types of cell motility and are ubiquitously expressed in all eukaryotic cells. Multiple isoforms are involved in various cellular functions such as cytoskeleton structure, cell mobility, chromosome movement and muscle contraction.

Publication Abstract from PubMed

The fungal toxin cytochalasin D (CD) interferes with the normal dynamics of the actin cytoskeleton by binding to the barbed end of actin filaments. Despite its widespread use as a tool for studying actin-mediated processes, the exact location and nature of its binding to actin have not been previously determined. Here we describe two crystal structures of an expressed monomeric actin in complex with CD: one obtained by soaking preformed actin crystals with CD, and the other obtained by cocrystallization. The binding site for CD, in the hydrophobic cleft between actin subdomains 1 and 3, is the same in the two structures. Polar and hydrophobic contacts play equally important roles in CD binding, and six hydrogen bonds stabilize the actin-CD complex. Many unrelated actin-binding proteins and marine toxins target this cleft and the hydrophobic pocket at the front end of the cleft (viewing actin with subdomain 2 in the upper right corner). CD differs in that it binds to the back half of the cleft. The ability of CD to induce actin dimer formation and actin-catalyzed ATP hydrolysis may be related to its unique binding site and the necessity to fit its bulky macrocycle into this cleft. Contacts with residues lining this cleft appear to be crucial to capping and/or severing. The cocrystallized actin-CD structure also revealed changes in actin conformation. An approximately 6 degrees rotation of the smaller actin domain (subdomains 1 and 2) with respect to the larger domain (subdomains 3 and 4) results in small changes in crystal packing that allow the D-loop to adopt an extended loop structure instead of being disordered, as it is in most crystal structures of actin. We speculate that these changes represent a potential conformation that the actin monomer can adopt on the pathway to polymerization or in the filament.

Crystal structures of monomeric actin bound to cytochalasin D.,Nair UB, Joel PB, Wan Q, Lowey S, Rould MA, Trybus KM J Mol Biol. 2008 Dec 26;384(4):848-64. Epub 2008 Oct 10. PMID:18938176^[1]

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

References

↑ Nair UB, Joel PB, Wan Q, Lowey S, Rould MA, Trybus KM. Crystal structures of monomeric actin bound to cytochalasin D. J Mol Biol. 2008 Dec 26;384(4):848-64. Epub 2008 Oct 10. PMID:18938176 doi:10.1016/j.jmb.2008.09.082

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/3eks"

@@ Line 3: / Line 3: @@
 <StructureSection load='3eks' size='340' side='right'caption='[[3eks]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3eks]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Drome Drome]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EKS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3EKS FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3eks]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EKS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3EKS FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CY9:(3S,3AR,4S,6S,6AR,7E,10S,12R,13E,15R,15AR)-3-BENZYL-6,12-DIHYDROXY-4,10,12-TRIMETHYL-5-METHYLIDENE-1,11-DIOXO-2,3,3A,4,5,6,6A,9,10,11,12,15-DODECAHYDRO-1H-CYCLOUNDECA[D]ISOINDOL-15-YL+ACETATE'>CY9</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]] 1.8&#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;'>[[3eku|3eku]], [[3el2|3el2]]</div></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CY9:(3S,3AR,4S,6S,6AR,7E,10S,12R,13E,15R,15AR)-3-BENZYL-6,12-DIHYDROXY-4,10,12-TRIMETHYL-5-METHYLIDENE-1,11-DIOXO-2,3,3A,4,5,6,6A,9,10,11,12,15-DODECAHYDRO-1H-CYCLOUNDECA[D]ISOINDOL-15-YL+ACETATE'>CY9</scene></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">Act5C, CG4027 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7227 DROME])</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=3eks FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eks OCA], [https://pdbe.org/3eks PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3eks RCSB], [https://www.ebi.ac.uk/pdbsum/3eks PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3eks ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[https://www.uniprot.org/uniprot/ACT1_DROME ACT1_DROME]] Actins are highly conserved proteins that are involved in various types of cell motility and are ubiquitously expressed in all eukaryotic cells.  Multiple isoforms are involved in various cellular functions such as cytoskeleton structure, cell mobility, chromosome movement and muscle contraction.
+[https://www.uniprot.org/uniprot/ACT1_DROME ACT1_DROME] Actins are highly conserved proteins that are involved in various types of cell motility and are ubiquitously expressed in all eukaryotic cells.  Multiple isoforms are involved in various cellular functions such as cytoskeleton structure, cell mobility, chromosome movement and muscle contraction.
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 27: / Line 26: @@
 __TOC__
 </StructureSection>
-[[Category: Drome]]
+[[Category: Drosophila melanogaster]]
 [[Category: Large Structures]]
-[[Category: Joel, P B]]
+[[Category: Joel PB]]
-[[Category: Lowey, S]]
+[[Category: Lowey S]]
-[[Category: Nair, U B]]
+[[Category: Nair UB]]
-[[Category: Rould, M A]]
+[[Category: Rould MA]]
-[[Category: Trybus, K M]]
+[[Category: Trybus KM]]
-[[Category: Wan, Q]]
+[[Category: Wan Q]]
-[[Category: Acetylation]]
-[[Category: Atp-binding]]
-[[Category: Atp-state]]
-[[Category: Contractile protein]]
-[[Category: Cytoplasm]]
-[[Category: Cytoskeleton]]
-[[Category: Fungal toxin]]
-[[Category: Motor protein]]
-[[Category: Nucleotide-binding]]

3eks

From Proteopedia

Revision as of 13:13, 26 July 2023

Crystal Structure of Monomeric Actin bound to Cytochalasin D

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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