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| - | [[Image:2p0j.jpg|left|200px]] | |
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| - | <!--
| + | ==Structure of restriction endonuclease BstYI bound to non-cognate DNA== |
| - | The line below this paragraph, containing "STRUCTURE_2p0j", creates the "Structure Box" on the page.
| + | <StructureSection load='2p0j' size='340' side='right'caption='[[2p0j]], [[Resolution|resolution]] 2.10Å' scene=''> |
| - | You may change the PDB parameter (which sets the PDB file loaded into the applet)
| + | == Structural highlights == |
| - | or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
| + | <table><tr><td colspan='2'>[[2p0j]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P0J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2P0J FirstGlance]. <br> |
| - | or leave the SCENE parameter empty for the default display.
| + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.1Å</td></tr> |
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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=2p0j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p0j OCA], [https://pdbe.org/2p0j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2p0j RCSB], [https://www.ebi.ac.uk/pdbsum/2p0j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2p0j ProSAT]</span></td></tr> |
| - | {{STRUCTURE_2p0j| PDB=2p0j | SCENE= }}
| + | </table> |
| - | | + | == Function == |
| - | '''Structure of restriction endonuclease BstYI bound to non-cognate DNA'''
| + | [https://www.uniprot.org/uniprot/Q84AF2_GEOSE Q84AF2_GEOSE] |
| - | | + | __TOC__ |
| - | | + | </StructureSection> |
| - | ==Overview== | + | |
| - | DNA recognition by proteins is essential for specific expression of genes in a living organism. En route to a target DNA site, a protein will often sample noncognate DNA sites through nonspecific protein-DNA interactions, resulting in a variety of conformationally different binding states. We present here the crystal structure of endonuclease BstYI bound to a noncognate DNA. Surprisingly, the structure reveals the enzyme in a "hemispecific" binding state on the pathway between nonspecific and specific recognition. A single base pair change in the DNA abolishes binding of only one monomer, with the second monomer bound specifically. We show that the enzyme binds essentially as a rigid body, and that one end of the DNA is accommodated loosely in the binding cleft while the other end is held tightly. Another intriguing feature of the structure is Ser172, which has a dual role in establishing nonspecific and specific contacts. Taken together, the structure provides a snapshot of an enzyme in a "paused" intermediate state that may be part of a more general mechanism of scanning DNA.
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| - | ==About this Structure== | + | |
| - | 2P0J is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P0J OCA].
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| - | | + | |
| - | ==Reference== | + | |
| - | BstYI bound to noncognate DNA reveals a "hemispecific" complex: implications for DNA scanning., Townson SA, Samuelson JC, Bao Y, Xu SY, Aggarwal AK, Structure. 2007 Apr;15(4):449-59. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17437717 17437717]
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| | [[Category: Geobacillus stearothermophilus]] | | [[Category: Geobacillus stearothermophilus]] |
| - | [[Category: Single protein]] | + | [[Category: Large Structures]] |
| - | [[Category: Aggarwal, A K.]] | + | [[Category: Aggarwal AK]] |
| - | [[Category: Bao, Y.]] | + | [[Category: Bao Y]] |
| - | [[Category: Samuelson, J C.]] | + | [[Category: Samuelson JC]] |
| - | [[Category: Townson, S A.]] | + | [[Category: Townson SA]] |
| - | [[Category: Xu, S Y.]] | + | [[Category: Xu SY]] |
| - | [[Category: Dna recognition]]
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| - | [[Category: Restriction endonuclease]]
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| - | [[Category: Scanning]]
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| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 12:04:20 2008''
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