3e3y: Difference between revisions

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-[[Image:3e3y.png|left|200px]]
+==Q138F HincII bound to GTTAAC and cocrystallized with 5 mM Ca2+==
+<StructureSection load='3e3y' size='340' side='right' caption='[[3e3y]], [[Resolution|resolution]] 2.13&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[3e3y]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E3Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3E3Y FirstGlance]. <br>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
+<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1tx3|1tx3]], [[2gij|2gij]], [[3e40|3e40]], [[3e41|3e41]], [[3e42|3e42]], [[3e43|3e43]], [[3e44|3e44]], [[3e45|3e45]]</td></tr>
+<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">hindIIR, HI0512 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 Haemophilus influenzae])</td></tr>
+<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Type_II_site-specific_deoxyribonuclease Type II site-specific deoxyribonuclease], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.21.4 3.1.21.4] </span></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3e3y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3e3y OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3e3y RCSB], [http://www.ebi.ac.uk/pdbsum/3e3y PDBsum]</span></td></tr>
+</table>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Five new structures of the Q138F HincII enzyme bound to a total of three different DNA sequences and three different metal ions (Ca(2+), Mg(2+), and Mn(2+)) are presented. While previous structures were produced from soaking Ca(2+) into preformed Q138F HincII/DNA crystals, the new structures are derived from cocrystallization with Ca(2+), Mg(2+), or Mn(2+). The Mn(2)(+)-bound structure provides the first view of a product complex of Q138F HincII with cleaved DNA. Binding studies and a crystal structure show how Ca(2+) allows trapping of a Q138F HincII complex with noncognate DNA in a catalytically incompetent conformation. Many Q138F HincII/DNA structures show asymmetry, despite the binding of a symmetric substrate by a symmetric enzyme. The various complexes are fit into a model describing the different conformations of the DNA-bound enzyme and show how DNA conformational energetics determine DNA-cleavage rates by the Q138F HincII enzyme.
-{{STRUCTURE_3e3y|  PDB=3e3y  |  SCENE=  }}
+DNA distortion and specificity in a sequence-specific endonuclease.,Babic AC, Little EJ, Manohar VM, Bitinaite J, Horton NC J Mol Biol. 2008 Oct 31;383(1):186-204. Epub 2008 Aug 22. PMID:18762194<ref>PMID:18762194</ref>
-===Q138F HincII bound to GTTAAC and cocrystallized with 5 mM Ca2+===
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
-{{ABSTRACT_PUBMED_18762194}}
-==About this Structure==
-[[3e3y]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E3Y OCA].
 ==See Also==
 *[[Endonuclease|Endonuclease]]
+== References ==
-==Reference==
+<references/>
-<ref group="xtra">PMID:018762194</ref><references group="xtra"/>
+__TOC__
+</StructureSection>
 [[Category: Haemophilus influenzae]]
 [[Category: Type II site-specific deoxyribonuclease]]
-[[Category: Babic, A C.]]
+[[Category: Babic, A C]]
-[[Category: Horton, N C.]]
+[[Category: Horton, N C]]
-[[Category: Little, E J.]]
+[[Category: Little, E J]]
-[[Category: Manohar, V M.]]
+[[Category: Manohar, V M]]
 [[Category: Endonuclease]]
 [[Category: Hydrolase]]