2iif

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{{Seed}}
 
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[[Image:2iif.png|left|200px]]
 
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==single chain Integration Host Factor mutant protein (scIHF2-K45aE) in complex with DNA==
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The line below this paragraph, containing "STRUCTURE_2iif", creates the "Structure Box" on the page.
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<StructureSection load='2iif' size='340' side='right'caption='[[2iif]], [[Resolution|resolution]] 2.72&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'>[[2iif]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IIF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2IIF 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]] 2.72&#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=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
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{{STRUCTURE_2iif| PDB=2iif | 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=2iif FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iif OCA], [https://pdbe.org/2iif PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2iif RCSB], [https://www.ebi.ac.uk/pdbsum/2iif PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2iif ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/IHFA_ECOLI IHFA_ECOLI] One of the 2 subunits of integration host factor (IHF), a specific DNA-binding protein that functions in genetic recombination as well as in transcriptional and translational control.<ref>PMID:7499339</ref> <ref>PMID:17238924</ref> Plays a crucial role in the lysogenic life cycle of bacteriophage lambda, as it is required not only in the recombination reaction, which inserts lambda DNA into the E.coli chromosome, but also for the synthesis of int and cI repressor, two phage proteins necessary for DNA insertion and repression, respectively. The synthesis of int and cI proteins is regulated indirectly by IHF via translational control of the lambda cII protein.<ref>PMID:7499339</ref> <ref>PMID:17238924</ref> Has an essential role in conjugative DNA transfer (CDT), the unidirectional transfer of ssDNA plasmid from a donor to a recipient cell. It is the central mechanism by which antibiotic resistance and virulence factors are propagated in bacterial populations. Part of the relaxosome, which facilitates a site- and strand-specific cut in the origin of transfer by TraI, at the nic site. Relaxosome formation requires binding of IHF and TraY to the oriT region, which then faciliates binding of TraI.<ref>PMID:7499339</ref> <ref>PMID:17238924</ref> [https://www.uniprot.org/uniprot/IHFB_ECOLI IHFB_ECOLI] One of the 2 subunits of integration host factor (IHF), a specific DNA-binding protein that functions in genetic recombination as well as in transcriptional and translational control.<ref>PMID:7499339</ref> <ref>PMID:17238924</ref> Plays a crucial role in the lysogenic life cycle of bacteriophage lambda, as it is required not only in the recombination reaction, which inserts lambda DNA into the E.coli chromosome, but also for the synthesis of int and cI repressor, two phage proteins necessary for DNA insertion and repression, respectively. The synthesis of int and cI proteins is regulated indirectly by IHF via translational control of the lambda cII protein.<ref>PMID:7499339</ref> <ref>PMID:17238924</ref> Has an essential role in conjugative DNA transfer (CDT), the unidirectional transfer of ssDNA plasmid from a donor to a recipient cell. It is the central mechanism by which antibiotic resistance and virulence factors are propagated in bacterial populations. Part of the relaxosome, which facilitates a site- and strand-specific cut in the origin of transfer by TraI, at the nic site. Relaxosome formation requires binding of IHF and TraY to the oriT region, which then faciliates binding of TraI.<ref>PMID:7499339</ref> <ref>PMID:17238924</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/ii/2iif_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=2iif 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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Architectural proteins that reconfigure the paths of DNA segments are required for the establishment of functional interfaces in many genomic transactions. A single-chain derivative of the DNA architectural protein integration host factor was found to adopt two stable conformational states in complex with a specific DNA target. In the so-called open state, the degree of protein-induced DNA bending is reduced significantly compared with the closed state. The conformational switch between these states is controlled by divalent metal binding in two electronegative zones arising from the lysine-to-glutamate substitution in the protein body proximal to the phosphate backbone of one DNA arm. We show that this switch can be employed to control the efficiency of site-specific recombination catalyzed by lambda integrase. Introduction of acidic residues at the protein-DNA interface holds potential for the design of metal-mediated switches for the investigation of functional relationships.
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===single chain Integration Host Factor mutant protein (scIHF2-K45aE) in complex with DNA===
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A divalent metal-mediated switch controlling protein-induced DNA bending.,Bao Q, Chen H, Liu Y, Yan J, Droge P, Davey CA J Mol Biol. 2007 Mar 30;367(3):731-40. Epub 2006 Oct 3. PMID:17276457<ref>PMID:17276457</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_17276457}}, adds the Publication Abstract to the page
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<div class="pdbe-citations 2iif" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 17276457 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_17276457}}
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__TOC__
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</StructureSection>
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==About this Structure==
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2IIF is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IIF OCA].
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==Reference==
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A divalent metal-mediated switch controlling protein-induced DNA bending., Bao Q, Chen H, Liu Y, Yan J, Droge P, Davey CA, J Mol Biol. 2007 Mar 30;367(3):731-40. Epub 2006 Oct 3. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17276457 17276457]
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Activation of site-specific DNA integration in human cells by a single chain integration host factor., Corona T, Bao Q, Christ N, Schwartz T, Li J, Droge P, Nucleic Acids Res. 2003 Sep 1;31(17):5140-8. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12930965 12930965]
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Single-chain integration host factors as probes for high-precision nucleoprotein complex formation., Bao Q, Christ N, Droge P, Gene. 2004 Dec 8;343(1):99-106. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15563835 15563835]
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[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
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[[Category: Single protein]]
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[[Category: Large Structures]]
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[[Category: Bao, Q.]]
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[[Category: Synthetic construct]]
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[[Category: Davey, C A.]]
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[[Category: Bao Q]]
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[[Category: Droege, P.]]
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[[Category: Davey CA]]
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[[Category: Bending]]
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[[Category: Droege P]]
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[[Category: Divalent]]
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[[Category: Dna kinking]]
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[[Category: Intercalation]]
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[[Category: Metal]]
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[[Category: U-turn]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 05:34:52 2008''
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Current revision

single chain Integration Host Factor mutant protein (scIHF2-K45aE) in complex with DNA

PDB ID 2iif

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