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==Crystal Structure of NotI Restriction Endonuclease Bound to Cognate DNA==
==Crystal Structure of NotI Restriction Endonuclease Bound to Cognate DNA==
<StructureSection load='3c25' size='340' side='right' caption='[[3c25]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
<StructureSection load='3c25' size='340' side='right'caption='[[3c25]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[3c25]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Nocardia_otitidiscaviarum Nocardia otitidiscaviarum]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3bvr 3bvr]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C25 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3C25 FirstGlance]. <br>
<table><tr><td colspan='2'>[[3c25]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Nocardia_otitidiscaviarum Nocardia otitidiscaviarum]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3bvr 3bvr]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C25 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3C25 FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</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]] 2.5&#8491;</td></tr>
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3bvq|3bvq]]</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene></td></tr>
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">notIR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1823 Nocardia otitidiscaviarum])</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=3c25 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c25 OCA], [https://pdbe.org/3c25 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3c25 RCSB], [https://www.ebi.ac.uk/pdbsum/3c25 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3c25 ProSAT]</span></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3c25 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c25 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3c25 RCSB], [http://www.ebi.ac.uk/pdbsum/3c25 PDBsum]</span></td></tr>
</table>
</table>
<div style="background-color:#fffaf0;">
== Function ==
== Publication Abstract from PubMed ==
[https://www.uniprot.org/uniprot/Q2I6W2_9NOCA Q2I6W2_9NOCA]
The structure of the rare-cutting restriction endonuclease NotI, which recognizes the 8 bp target 5'-GCGGCCGC-3', has been solved with and without bound DNA. Because of its specificity (recognizing a site that occurs once per 65 kb), NotI is used to generate large genomic fragments and to map DNA methylation status. NotI contains a unique metal binding fold, found in a variety of putative endonucleases, occupied by an iron atom coordinated within a tetrahedral Cys4 motif. This domain positions nearby protein elements for DNA recognition, and serves a structural role. While recognition of the central six base pairs of the target is accomplished via a saturated hydrogen bond network typical of restriction enzymes, the most peripheral base pairs are engaged in a single direct contact in the major groove, reflecting reduced pressure to recognize those positions. NotI may represent an evolutionary intermediate between mobile endonucleases (which recognize longer target sites) and canonical restriction endonucleases.
 
Structures of the Rare-Cutting Restriction Endonuclease NotI Reveal a Unique Metal Binding Fold Involved in DNA Binding.,Lambert AR, Sussman D, Shen B, Maunus R, Nix J, Samuelson J, Xu SY, Stoddard BL Structure. 2008 Apr;16(4):558-69. PMID:18400177<ref>PMID:18400177</ref>
 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>


==See Also==
==See Also==
*[[Endonuclease|Endonuclease]]
*[[Endonuclease 3D structures|Endonuclease 3D structures]]
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Large Structures]]
[[Category: Nocardia otitidiscaviarum]]
[[Category: Nocardia otitidiscaviarum]]
[[Category: Lambert, A R.]]
[[Category: Lambert AR]]
[[Category: Shen, B.]]
[[Category: Shen B]]
[[Category: Stoddard, B L.]]
[[Category: Stoddard BL]]
[[Category: Sussman, D.]]
[[Category: Sussman D]]
[[Category: Fe-cys4 motif]]
[[Category: Hydrolase-dna complex]]
[[Category: Iron-sulfur protein]]
[[Category: Protein-dna complex]]
[[Category: Rare-cutting]]
[[Category: Restriction endonuclease]]
[[Category: Restriction enzyme fold]]
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