3bvq
From Proteopedia
| Line 1: | Line 1: | ||
[[Image:3bvq.jpg|left|200px]] | [[Image:3bvq.jpg|left|200px]] | ||
| - | + | <!-- | |
| - | + | The line below this paragraph, containing "STRUCTURE_3bvq", creates the "Structure Box" on the page. | |
| - | + | You may change the PDB parameter (which sets the PDB file loaded into the applet) | |
| - | + | or the SCENE parameter (which sets the initial scene displayed when the page is loaded), | |
| - | + | or leave the SCENE parameter empty for the default display. | |
| - | + | --> | |
| - | + | {{STRUCTURE_3bvq| PDB=3bvq | SCENE= }} | |
| - | | | + | |
| - | + | ||
| - | }} | + | |
'''Crystal Structure of Apo NotI Restriction Endonuclease''' | '''Crystal Structure of Apo NotI Restriction Endonuclease''' | ||
| + | |||
| + | ==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== | ||
3BVQ is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Nocardia_otitidiscaviarum Nocardia otitidiscaviarum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BVQ OCA]. | 3BVQ is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Nocardia_otitidiscaviarum Nocardia otitidiscaviarum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BVQ 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:[http://www.ncbi.nlm.nih.gov/pubmed/18400177 18400177] | ||
[[Category: Nocardia otitidiscaviarum]] | [[Category: Nocardia otitidiscaviarum]] | ||
[[Category: Single protein]] | [[Category: Single protein]] | ||
| Line 23: | Line 26: | ||
[[Category: Stoddard, B L.]] | [[Category: Stoddard, B L.]] | ||
[[Category: Sussman, D.]] | [[Category: Sussman, D.]] | ||
| - | [[Category: | + | [[Category: Fe-cys4 motif]] |
| - | [[Category: | + | [[Category: Hydrolase]] |
| - | [[Category: | + | [[Category: Iron-sulfur protein]] |
| - | [[Category: | + | [[Category: Rare-cutting]] |
| - | + | [[Category: Restriction endonuclease]] | |
| - | [[Category: | + | [[Category: Restriction enzyme fold]] |
| - | [[Category: | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Apr 30 13:39:11 2008'' |
| - | + | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | |
Revision as of 10:39, 30 April 2008
Crystal Structure of Apo NotI Restriction Endonuclease
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
3BVQ is a Single protein structure of sequence from Nocardia otitidiscaviarum. 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 13:39:11 2008
