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3hqg

From Proteopedia

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{{Seed}}
 
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[[Image:3hqg.jpg|left|200px]]
 
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==Crystal structure of restriction endonuclease EcoRII catalytic C-terminal domain in complex with cognate DNA==
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The line below this paragraph, containing "STRUCTURE_3hqg", creates the "Structure Box" on the page.
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<StructureSection load='3hqg' size='340' side='right'caption='[[3hqg]], [[Resolution|resolution]] 2.60&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'>[[3hqg]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HQG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3HQG 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]] 2.6&#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=GOL:GLYCEROL'>GOL</scene></td></tr>
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{{STRUCTURE_3hqg| PDB=3hqg | 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=3hqg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hqg OCA], [https://pdbe.org/3hqg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3hqg RCSB], [https://www.ebi.ac.uk/pdbsum/3hqg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3hqg ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/T2E2_ECOLX T2E2_ECOLX] Recognizes the double-stranded sequence CCWGG and cleaves before C-1.
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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/hq/3hqg_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=3hqg 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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EcoRII restriction endonuclease is specific for the 5'-CCWGG sequence (W stands for A or T); however, it shows no activity on a single recognition site. To activate cleavage it requires binding of an additional target site as an allosteric effector. EcoRII dimer consists of three structural units: a central catalytic core, made from two copies of the C-terminal domain (EcoRII-C), and two N-terminal effector DNA binding domains (EcoRII-N). Here, we report DNA-bound EcoRII-N and EcoRII-C structures, which show that EcoRII combines two radically different structural mechanisms to interact with the effector and substrate DNA. The catalytic EcoRII-C dimer flips out the central T:A base pair and makes symmetric interactions with the CC:GG half-sites. The EcoRII-N effector domain monomer binds to the target site asymmetrically in a single defined orientation which is determined by specific hydrogen bonding and van der Waals interactions with the central T:A pair in the major groove. The EcoRII-N mode of the target site recognition is shared by the large class of higher plant transcription factors of the B3 superfamily.
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===Crystal structure of restriction endonuclease EcoRII catalytic C-terminal domain in complex with cognate DNA===
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Structural mechanisms for the 5'-CCWGG sequence recognition by the N- and C-terminal domains of EcoRII.,Golovenko D, Manakova E, Tamulaitiene G, Grazulis S, Siksnys V Nucleic Acids Res. 2009 Oct;37(19):6613-24. Epub 2009 Sep 3. PMID:19729506<ref>PMID:19729506</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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<div class="pdbe-citations 3hqg" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_19729506}}, adds the Publication Abstract to the page
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*[[Endonuclease 3D structures|Endonuclease 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 19729506 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_19729506}}
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__TOC__
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</StructureSection>
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==About this Structure==
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3HQG is a 3 chains structure of sequences 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=3HQG OCA].
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==Reference==
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<ref group="xtra">PMID:19729506</ref><ref group="xtra">PMID:14659759</ref><references group="xtra"/>
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[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
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[[Category: Type II site-specific deoxyribonuclease]]
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[[Category: Large Structures]]
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[[Category: Golovenko, D.]]
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[[Category: Golovenko D]]
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[[Category: Grazulis, S.]]
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[[Category: Grazulis S]]
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[[Category: Manakova, E.]]
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[[Category: Manakova E]]
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[[Category: Siksnys, V.]]
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[[Category: Siksnys V]]
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[[Category: Tamulaitiene, G.]]
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[[Category: Tamulaitiene G]]
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[[Category: Dna recognition]]
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[[Category: Ecorii]]
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[[Category: Endonuclease]]
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[[Category: Hydrolase]]
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[[Category: Hydrolase/dna complex]]
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[[Category: Magnesium]]
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[[Category: Nuclease]]
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[[Category: Nucleotide flipping]]
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[[Category: Protein-dna complex]]
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[[Category: Restriction endonuclease]]
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[[Category: Restriction system]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 23 08:50:38 2009''
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Current revision

Crystal structure of restriction endonuclease EcoRII catalytic C-terminal domain in complex with cognate DNA

PDB ID 3hqg

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