3cm5

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{{Seed}}
 
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[[Image:3cm5.png|left|200px]]
 
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==Crystal structure of Cell-Death Related Nuclease 4 (CRN-4) bound with Mn==
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The line below this paragraph, containing "STRUCTURE_3cm5", creates the "Structure Box" on the page.
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<StructureSection load='3cm5' size='340' side='right'caption='[[3cm5]], [[Resolution|resolution]] 2.81&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[3cm5]] 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=3CM5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3CM5 FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.81&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
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{{STRUCTURE_3cm5| PDB=3cm5 | SCENE= }}
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3cm5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cm5 OCA], [https://pdbe.org/3cm5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3cm5 RCSB], [https://www.ebi.ac.uk/pdbsum/3cm5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3cm5 ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/CRN4_CAEEL CRN4_CAEEL] Involved in the degradation of chromosomal DNA. Contributes to cell killing.
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cm/3cm5_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3cm5 ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Cell death related nuclease 4 (CRN-4) is one of the apoptotic nucleases involved in DNA degradation in Caenorhabditis elegans. To understand how CRN-4 is involved in apoptotic DNA fragmentation, we analyzed CRN-4's biochemical properties, in vivo cell functions, and the crystal structures of CRN-4 in apo-form, Mn(2+)-bound active form, and Er(3+)-bound inactive form. CRN-4 is a dimeric nuclease with the optimal enzyme activity in cleaving double-stranded DNA in apoptotic salt conditions. Both mutational studies and the structures of the Mn(2+)-bound CRN-4 revealed the geometry of the functional nuclease active site in the N-terminal DEDDh domain. The C-terminal domain, termed the Zn-domain, contains basic surface residues ideal for nucleic acid recognition and is involved in DNA binding, as confirmed by deletion assays. Cell death analysis in C. elegans further demonstrated that both the nuclease active site and the Zn-domain are required for crn-4's function in apoptosis. Combining all of the data, we suggest a structural model where chromosomal DNA is bound at the Zn-domain and cleaved at the DEDDh nuclease domain in CRN-4 when the cell is undergoing apoptosis.
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===Crystal structure of Cell-Death Related Nuclease 4 (CRN-4) bound with Mn===
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Crystal Structure of CRN-4: Implications for Domain Function in Apoptotic DNA Degradation.,Hsiao YY, Nakagawa A, Shi Z, Mitani S, Xue D, Yuan HS Mol Cell Biol. 2009 Jan;29(2):448-57. Epub 2008 Nov 3. PMID:18981218<ref>PMID:18981218</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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The line below this paragraph, {{ABSTRACT_PUBMED_18981218}}, adds the Publication Abstract to the page
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<div class="pdbe-citations 3cm5" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 18981218 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_18981218}}
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__TOC__
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</StructureSection>
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==About this Structure==
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3CM5 is a 2 chains structure with sequences from [http://en.wikipedia.org/wiki/Caenorhabditis_elegans Caenorhabditis elegans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CM5 OCA].
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==Reference==
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<ref group="xtra">PMID:18981218</ref><references group="xtra"/>
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[[Category: Caenorhabditis elegans]]
[[Category: Caenorhabditis elegans]]
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[[Category: Hsiao, Y Y.]]
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[[Category: Large Structures]]
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[[Category: Yuan, H S.]]
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[[Category: Hsiao Y-Y]]
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[[Category: 3'-5' exonuclease]]
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[[Category: Yuan HS]]
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[[Category: Apoptosis]]
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[[Category: Apoptotic nuclease]]
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[[Category: Dedd family]]
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[[Category: Hydrolase]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 22 11:24:16 2010''
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Current revision

Crystal structure of Cell-Death Related Nuclease 4 (CRN-4) bound with Mn

PDB ID 3cm5

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