3c25
From Proteopedia
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| - | + | {{STRUCTURE_3c25| PDB=3c25 | SCENE= }} | |
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'''Crystal Structure of NotI Restriction Endonuclease Bound to Cognate DNA''' | '''Crystal Structure of NotI Restriction Endonuclease Bound to Cognate DNA''' | ||
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| + | ==Overview== | ||
| + | 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. | ||
==About this Structure== | ==About this Structure== | ||
| - | 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 | + | 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== | ||
| + | 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] | ||
[[Category: Nocardia otitidiscaviarum]] | [[Category: Nocardia otitidiscaviarum]] | ||
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
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[[Category: Stoddard, B L.]] | [[Category: Stoddard, B L.]] | ||
[[Category: Sussman, D.]] | [[Category: Sussman, D.]] | ||
| - | [[Category: | + | [[Category: Fe-cys4 motif]] |
| - | [[Category: | + | [[Category: Hydrolase/dna complex]] |
| - | [[Category: | + | [[Category: Iron-sulfur protein]] |
| - | [[Category: | + | [[Category: Protein-dna complex]] |
| - | + | [[Category: Rare-cutting]] | |
| - | [[Category: | + | [[Category: Restriction endonuclease]] |
| - | [[Category: | + | [[Category: Restriction enzyme fold]] |
| - | [[Category: | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Apr 30 13:39:13 2008'' |
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| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | |
Revision as of 10:39, 30 April 2008
Crystal Structure of NotI Restriction Endonuclease Bound to Cognate DNA
Overview
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.
About this Structure
3C25 is a Protein complex structure of sequences from Nocardia otitidiscaviarum. This structure supersedes the now removed PDB entry 3bvr. Full crystallographic information is available from OCA.
Reference
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 Page seeded by OCA on Wed Apr 30 13:39:13 2008
