4v4l

From Proteopedia

(Difference between revisions)

Revision as of 08:03, 29 March 2023

Structure of the Drosophila apoptosome

4v4l, resolution 6.90Å

Structural highlights

4v4l is a 16 chain structure with sequence from Drosophila melanogaster. This structure supersedes the now removed PDB entries 1vt4 and 3iz8. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:
Experimental data:	Check to display Experimental Data
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

Q7KLI1_DROME

Publication Abstract from PubMed

The Drosophila Apaf-1 related killer forms an apoptosome in the intrinsic cell death pathway. In this study we show that Dark forms a single ring when initiator procaspases are bound. This Dark-Dronc complex cleaves DrICE efficiently; hence, a single ring represents the Drosophila apoptosome. We then determined the 3D structure of a double ring at approximately 6.9 A resolution and created a model of the apoptosome. Subunit interactions in the Dark complex are similar to those in Apaf-1 and CED-4 apoptosomes, but there are significant differences. In particular, Dark has "lost" a loop in the nucleotide-binding pocket, which opens a path for possible dATP exchange in the apoptosome. In addition, caspase recruitment domains (CARDs) form a crown on the central hub of the Dark apoptosome. This CARD geometry suggests that conformational changes will be required to form active Dark-Dronc complexes. When taken together, these data provide insights into apoptosome structure, function, and evolution.

Structure of the Drosophila apoptosome at 6.9 a resolution.,Yuan S, Yu X, Topf M, Dorstyn L, Kumar S, Ludtke SJ, Akey CW Structure. 2011 Jan 12;19(1):128-40. PMID:21220123^[1]

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

References

↑ Yuan S, Yu X, Topf M, Dorstyn L, Kumar S, Ludtke SJ, Akey CW. Structure of the Drosophila apoptosome at 6.9 a resolution. Structure. 2011 Jan 12;19(1):128-40. PMID:21220123 doi:10.1016/j.str.2010.10.009

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/4v4l"

@@ Line 3: / Line 3: @@
 <SX load='4v4l' size='340' side='right' viewer='molstar' caption='[[4v4l]], [[Resolution|resolution]] 6.90&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4v4l]] is a 16 chain structure with sequence from [http://en.wikipedia.org/wiki/Drome Drome]. This structure supersedes the now removed PDB entries [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1vt4 1vt4] and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3iz8 3iz8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4V4L OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=4V4L FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4v4l]] is a 16 chain structure with sequence from [https://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. This structure supersedes the now removed PDB entries [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1vt4 1vt4] and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3iz8 3iz8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4V4L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4V4L FirstGlance]. <br>
 </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DTP:2-DEOXYADENOSINE+5-TRIPHOSPHATE'>DTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=UNK:UNKNOWN'>UNK</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=4v4l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4v4l OCA], [https://pdbe.org/4v4l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4v4l RCSB], [https://www.ebi.ac.uk/pdbsum/4v4l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4v4l ProSAT]</span></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">Ark, CG6829, dapaf-1L, Dmel_CG6829, Hac1 ([http://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'>[http://proteopedia.org/fgij/fg.htm?mol=4v4l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4v4l OCA], [http://pdbe.org/4v4l PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4v4l RCSB], [http://www.ebi.ac.uk/pdbsum/4v4l PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4v4l ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q7KLI1_DROME Q7KLI1_DROME]
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 20: / Line 20: @@
 ==See Also==
-*[[Cell death protein|Cell death protein]]
+*[[Cell death protein 3D structures|Cell death protein 3D structures]]
 == References ==
 <references/>
 __TOC__
 </SX>
-[[Category: Drome]]
+[[Category: Drosophila melanogaster]]
 [[Category: Large Structures]]
-[[Category: Akey, C W]]
+[[Category: Akey CW]]
-[[Category: Ludtke, S J]]
+[[Category: Ludtke SJ]]
-[[Category: Topf, M]]
+[[Category: Topf M]]
-[[Category: Yuan, S]]
+[[Category: Yuan S]]
-[[Category: Apoptosis]]
-[[Category: Drosophila apoptosome]]
-[[Category: Programmed cell death]]

4v4l

From Proteopedia

Revision as of 08:03, 29 March 2023

Structure of the Drosophila apoptosome

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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