2pfj

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{{Seed}}
 
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[[Image:2pfj.png|left|200px]]
 
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==Crystal Structure of T7 Endo I resolvase in complex with a Holliday Junction==
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The line below this paragraph, containing "STRUCTURE_2pfj", creates the "Structure Box" on the page.
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<StructureSection load='2pfj' size='340' side='right'caption='[[2pfj]], [[Resolution|resolution]] 3.10&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[2pfj]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_phage_T7 Escherichia phage T7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PFJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2PFJ FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.1&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
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{{STRUCTURE_2pfj| PDB=2pfj | SCENE= }}
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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=2pfj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pfj OCA], [https://pdbe.org/2pfj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2pfj RCSB], [https://www.ebi.ac.uk/pdbsum/2pfj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2pfj ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/ENDO_BPT7 ENDO_BPT7] Junction-resolving enzyme that selectively binds and cleaves four-way (Holliday) DNA junctions present after viral genomic replication. These intermediates are created during DNA repair, processing of stalled replication forks and homologous genetic recombination. Introduces two nicks on the two non-crossing strands, at 5' sides of the junction. Participates also together with gp6 in the degradation of host chromosome to provide nucleotides for phage DNA synthesis.<ref>PMID:12628932</ref> <ref>PMID:23207296</ref> <ref>PMID:3972821</ref> <ref>PMID:9236119</ref>
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/pf/2pfj_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2pfj ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The four-way (Holliday) DNA junction is the central intermediate in homologous recombination, a ubiquitous process that is important in DNA repair and generation of genetic diversity. The penultimate stage of recombination requires resolution of the DNA junction into nicked-duplex species by the action of a junction-resolving enzyme, examples of which have been identified in a wide variety of organisms. These enzymes are nucleases that are highly selective for the structure of branched DNA. The mechanism of this selectivity has, however, been unclear in the absence of structural data. Here we present the crystal structure of the junction-resolving enzyme phage T7 endonuclease I in complex with a synthetic four-way DNA junction. Although the enzyme is structure-selective, significant induced fit occurs in the interaction, with changes in the structure of both the protein and the junction. The dimeric enzyme presents two binding channels that contact the backbones of the junction's helical arms over seven nucleotides. These interactions effectively measure the relative orientations and positions of the arms of the junction, thereby ensuring that binding is selective for branched DNA that can achieve this geometry.
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===Crystal Structure of T7 Endo I resolvase in complex with a Holliday Junction===
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The structural basis of Holliday junction resolution by T7 endonuclease I.,Hadden JM, Declais AC, Carr SB, Lilley DM, Phillips SE Nature. 2007 Oct 4;449(7162):621-4. Epub 2007 Sep 16. PMID:17873858<ref>PMID:17873858</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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The line below this paragraph, {{ABSTRACT_PUBMED_17873858}}, adds the Publication Abstract to the page
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<div class="pdbe-citations 2pfj" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 17873858 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_17873858}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Escherichia phage T7]]
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2PFJ is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t7 Enterobacteria phage t7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PFJ OCA].
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[[Category: Large Structures]]
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[[Category: Carr SB]]
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==Reference==
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[[Category: Declais AC]]
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The structural basis of Holliday junction resolution by T7 endonuclease I., Hadden JM, Declais AC, Carr SB, Lilley DM, Phillips SE, Nature. 2007 Oct 4;449(7162):621-4. Epub 2007 Sep 16. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17873858 17873858]
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[[Category: Hadden JM]]
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[[Category: Enterobacteria phage t7]]
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[[Category: Lilley DM]]
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[[Category: Single protein]]
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[[Category: Phillips SE]]
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[[Category: Carr, S B.]]
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[[Category: Declais, A C.]]
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[[Category: Hadden, J M.]]
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[[Category: Lilley, D M.]]
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[[Category: Phillips, S E.]]
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[[Category: Composite active site]]
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[[Category: Domain swapped]]
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[[Category: Holliday junction resolvase]]
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[[Category: Homodimer]]
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[[Category: Hydrolase]]
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[[Category: Hydrolase/dna complex]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 10:57:25 2008''
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Current revision

Crystal Structure of T7 Endo I resolvase in complex with a Holliday Junction

PDB ID 2pfj

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