1dmu: Difference between revisions

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-{{Seed}}
-[[Image:1dmu.png|left|200px]]
-<!--
+==Crystal structure of the restriction endonuclease BglI (e.c.3.1.21.4) bound to its dna recognition sequence==
-The line below this paragraph, containing "STRUCTURE_1dmu", creates the "Structure Box" on the page.
+<StructureSection load='1dmu' size='340' side='right'caption='[[1dmu]], [[Resolution|resolution]] 2.20&Aring;' 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'>[[1dmu]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DMU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DMU FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></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=1dmu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dmu OCA], [https://pdbe.org/1dmu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1dmu RCSB], [https://www.ebi.ac.uk/pdbsum/1dmu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dmu ProSAT]</span></td></tr>
-{{STRUCTURE_1dmu|  PDB=1dmu  |  SCENE=  }}
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/T2B1_BACIU T2B1_BACIU] A P subtype restriction enzyme that recognizes the double-stranded sequence 5'-GCCNNNNNGGC-3' and cleaves before N-8.<ref>PMID:9736624</ref> <ref>PMID:12654995</ref>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The crystal structure of the type II restriction endonuclease BglI bound to DNA containing its specific recognition sequence has been determined at 2.2 A resolution. This is the first structure of a restriction endonuclease that recognizes and cleaves an interrupted DNA sequence, producing 3' overhanging ends. BglI is a homodimer that binds its specific DNA sequence with the minor groove facing the protein. Parts of the enzyme reach into both the major and minor grooves to contact the edges of the bases within the recognition half-sites. The arrangement of active site residues is strikingly similar to other restriction endonucleases, but the co-ordination of two calcium ions at the active site gives new insight into the catalytic mechanism. Surprisingly, the core of a BglI subunit displays a striking similarity to subunits of EcoRV and PvuII, but the dimer structure is dramatically different. The BglI-DNA complex demonstrates, for the first time, that a conserved subunit fold can dimerize in more than one way, resulting in different DNA cleavage patterns.
-===CRYSTAL STRUCTURE OF THE RESTRICTION ENDONUCLEASE BGLI (E.C.3.1.21.4) BOUND TO ITS DNA RECOGNITION SEQUENCE===
+Crystal structure of restriction endonuclease BglI bound to its interrupted DNA recognition sequence.,Newman M, Lunnen K, Wilson G, Greci J, Schildkraut I, Phillips SE EMBO J. 1998 Sep 15;17(18):5466-76. PMID:9736624<ref>PMID:9736624</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1dmu" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_9736624}}, adds the Publication Abstract to the page
+*[[Endonuclease 3D structures|Endonuclease 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 9736624 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_9736624}}
+__TOC__
+</StructureSection>
-==About this Structure==
-DMU is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DMU OCA].
-==Reference==
-Crystal structure of restriction endonuclease BglI bound to its interrupted DNA recognition sequence., Newman M, Lunnen K, Wilson G, Greci J, Schildkraut I, Phillips SE, EMBO J. 1998 Sep 15;17(18):5466-76. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/9736624 9736624]
 [[Category: Bacillus subtilis]]
-[[Category: Single protein]]
+[[Category: Large Structures]]
-[[Category: Type II site-specific deoxyribonuclease]]
+[[Category: Greci J]]
-[[Category: Greci, J.]]
+[[Category: Lunnen K]]
-[[Category: Lunnen, K.]]
+[[Category: Newman M]]
-[[Category: Newman, M.]]
+[[Category: Phillips SEV]]
-[[Category: Phillips, S E.V.]]
+[[Category: Schildkraut I]]
-[[Category: Schildkraut, I.]]
+[[Category: Wilson G]]
-[[Category: Wilson, G.]]
-[[Category: A:a mismatch]]
-[[Category: Active site calcium ion]]
-[[Category: Alpha/beta structure]]
-[[Category: Protein-dna complex]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jun 30 23:18:48 2008''