3c25

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[[Image:3c25.jpg|left|200px]]
 
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==Crystal Structure of NotI Restriction Endonuclease Bound to Cognate DNA==
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The line below this paragraph, containing "STRUCTURE_3c25", creates the "Structure Box" on the page.
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<StructureSection load='3c25' size='340' side='right'caption='[[3c25]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
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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'>[[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>
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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]] 2.5&#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=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene></td></tr>
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{{STRUCTURE_3c25| PDB=3c25 | 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=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>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/Q2I6W2_9NOCA Q2I6W2_9NOCA]
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'''Crystal Structure of NotI Restriction Endonuclease Bound to Cognate DNA'''
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==See Also==
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*[[Endonuclease 3D structures|Endonuclease 3D structures]]
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__TOC__
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==Overview==
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</StructureSection>
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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.
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[[Category: Large Structures]]
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==About this Structure==
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3C25 is a [[Protein complex]] structure of sequences 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].
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==Reference==
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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:[http://www.ncbi.nlm.nih.gov/pubmed/18400177 18400177]
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[[Category: Nocardia otitidiscaviarum]]
[[Category: Nocardia otitidiscaviarum]]
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[[Category: Protein complex]]
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[[Category: Lambert AR]]
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[[Category: Lambert, A R.]]
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[[Category: Shen B]]
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[[Category: Shen, B.]]
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[[Category: Stoddard BL]]
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[[Category: Stoddard, B L.]]
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[[Category: Sussman D]]
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[[Category: Sussman, D.]]
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[[Category: Fe-cys4 motif]]
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[[Category: Hydrolase/dna complex]]
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[[Category: Iron-sulfur protein]]
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[[Category: Protein-dna complex]]
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[[Category: Rare-cutting]]
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[[Category: Restriction endonuclease]]
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[[Category: Restriction enzyme fold]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Apr 30 13:39:13 2008''
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Current revision

Crystal Structure of NotI Restriction Endonuclease Bound to Cognate DNA

PDB ID 3c25

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