3s5b

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (08:36, 20 March 2024) (edit) (undo)
 
Line 3: Line 3:
<StructureSection load='3s5b' size='340' side='right'caption='[[3s5b]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
<StructureSection load='3s5b' size='340' side='right'caption='[[3s5b]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[3s5b]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Caeel Caeel]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3S5B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3S5B FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[3s5b]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Caenorhabditis_elegans Caenorhabditis elegans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3S5B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3S5B FirstGlance]. <br>
-
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 1.796&#8491;</td></tr>
-
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">cps-6 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6239 CAEEL])</td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><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=3s5b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3s5b OCA], [https://pdbe.org/3s5b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3s5b RCSB], [https://www.ebi.ac.uk/pdbsum/3s5b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3s5b ProSAT]</span></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=3s5b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3s5b OCA], [https://pdbe.org/3s5b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3s5b RCSB], [https://www.ebi.ac.uk/pdbsum/3s5b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3s5b ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
-
[[https://www.uniprot.org/uniprot/NUCG_CAEEL NUCG_CAEEL]] Endonuclease important for programmed cell death; it mediates apoptotic DNA fragmentation.
+
[https://www.uniprot.org/uniprot/NUCG_CAEEL NUCG_CAEEL] Endonuclease important for programmed cell death; it mediates apoptotic DNA fragmentation.
-
<div style="background-color:#fffaf0;">
+
-
== Publication Abstract from PubMed ==
+
-
Endonuclease G (EndoG) is a mitochondrial protein that traverses to the nucleus and participates in chromosomal DNA degradation during apoptosis in yeast, worms, flies, and mammals. However, it remains unclear how EndoG binds and digests DNA. Here we show that the Caenorhabditis elegans CPS-6, a homolog of EndoG, is a homodimeric Mg(2+)-dependent nuclease, binding preferentially to G-tract DNA in the optimum low salt buffer at pH 7. The crystal structure of CPS-6 was determined at 1.8 A resolution, revealing a mixed alphabeta topology with the two betabetaalpha-metal finger nuclease motifs located distantly at the two sides of the dimeric enzyme. A structural model of the CPS-6-DNA complex suggested a positively charged DNA-binding groove near the Mg(2+)-bound active site. Mutations of four aromatic and basic residues: Phe(122), Arg(146), Arg(156), and Phe(166), in the protein-DNA interface significantly reduced the DNA binding and cleavage activity of CPS-6, confirming that these residues are critical for CPS-6-DNA interactions. In vivo transformation rescue experiments further showed that the reduced DNase activity of CPS-6 mutants was positively correlated with its diminished cell killing activity in C. elegans. Taken together, these biochemical, structural, mutagenesis, and in vivo data reveal a molecular basis of how CPS-6 binds and hydrolyzes DNA to promote cell death.
+
-
 
+
-
Structural insights into apoptotic DNA degradation by CED-3 protease suppressor-6 (CPS-6) from Caenorhabditis elegans.,Lin JL, Nakagawa A, Lin CL, Hsiao YY, Yang WZ, Wang YT, Doudeva LG, Skeen-Gaar RR, Xue D, Yuan HS J Biol Chem. 2012 Mar 2;287(10):7110-20. Epub 2012 Jan 5. PMID:22223640<ref>PMID:22223640</ref>
+
-
 
+
-
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+
-
</div>
+
-
<div class="pdbe-citations 3s5b" style="background-color:#fffaf0;"></div>
+
-
== References ==
+
-
<references/>
+
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Caeel]]
+
[[Category: Caenorhabditis elegans]]
[[Category: Large Structures]]
[[Category: Large Structures]]
-
[[Category: Lin, J L.J]]
+
[[Category: Lin JLJ]]
-
[[Category: Yuan, H S]]
+
[[Category: Yuan HS]]
-
[[Category: Beta-beta-alpha-metal finger nuclease]]
+
-
[[Category: Dna fragmentation]]
+
-
[[Category: Dnase]]
+
-
[[Category: Hydrolase]]
+
-
[[Category: Mitochondria]]
+
-
[[Category: Nuclease]]
+
-
[[Category: Protein-dna interaction]]
+

Current revision

Crystal Structure of CED-3 Protease Suppressor-6 (CPS-6) from Caenorhabditis elegans

PDB ID 3s5b

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3s5b"
Personal tools