2ido

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[[Image:2ido.gif|left|200px]]<br /><applet load="2ido" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="2ido, resolution 2.10&Aring;" />
 
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'''Structure of the E. coli Pol III epsilon-Hot proofreading complex'''<br />
 
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==Overview==
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==Structure of the E. coli Pol III epsilon-Hot proofreading complex==
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<StructureSection load='2ido' size='340' side='right'caption='[[2ido]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[2ido]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] and [https://en.wikipedia.org/wiki/Escherichia_virus_P1 Escherichia virus P1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IDO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2IDO FirstGlance]. <br>
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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]] 2.1&#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=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=TMP:THYMIDINE-5-PHOSPHATE'>TMP</scene></td></tr>
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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=2ido FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ido OCA], [https://pdbe.org/2ido PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ido RCSB], [https://www.ebi.ac.uk/pdbsum/2ido PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ido ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/DPO3E_ECOLI DPO3E_ECOLI] DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The epsilon subunit contain the editing function and is a proofreading 3'-5' exonuclease.
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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/id/2ido_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=2ido 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 ==
The epsilon subunit of Escherichia coli DNA polymerase III possesses 3'-exonucleolytic proofreading activity. Within the Pol III core, epsilon is tightly bound between the alpha subunit (DNA polymerase) and subunit. Here, we present the crystal structure of epsilon in complex with HOT, the bacteriophage P1-encoded homolog of , at 2.1 A resolution. The epsilon-HOT interface is defined by two areas of contact: an interaction of the previously unstructured N terminus of HOT with an edge of the epsilon central beta-sheet as well as interactions between HOT and the catalytically important helix alpha1-loop-helix alpha2 motif of epsilon. This structure provides insight into how HOT and, by implication, may stabilize the epsilon subunit, thus promoting efficient proofreading during chromosomal replication.
The epsilon subunit of Escherichia coli DNA polymerase III possesses 3'-exonucleolytic proofreading activity. Within the Pol III core, epsilon is tightly bound between the alpha subunit (DNA polymerase) and subunit. Here, we present the crystal structure of epsilon in complex with HOT, the bacteriophage P1-encoded homolog of , at 2.1 A resolution. The epsilon-HOT interface is defined by two areas of contact: an interaction of the previously unstructured N terminus of HOT with an edge of the epsilon central beta-sheet as well as interactions between HOT and the catalytically important helix alpha1-loop-helix alpha2 motif of epsilon. This structure provides insight into how HOT and, by implication, may stabilize the epsilon subunit, thus promoting efficient proofreading during chromosomal replication.
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==About this Structure==
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Structure of the Escherichia coli DNA polymerase III epsilon-HOT proofreading complex.,Kirby TW, Harvey S, DeRose EF, Chalov S, Chikova AK, Perrino FW, Schaaper RM, London RE, Pedersen LC J Biol Chem. 2006 Dec 15;281(50):38466-71. Epub 2006 Sep 13. PMID:16973612<ref>PMID:16973612</ref>
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2IDO is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Enterobacteria_phage_p21 Enterobacteria phage p21] and [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] with <scene name='pdbligand=MN:'>MN</scene>, <scene name='pdbligand=TMP:'>TMP</scene> and <scene name='pdbligand=EDO:'>EDO</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IDO OCA].
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==Reference==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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Structure of the Escherichia coli DNA polymerase III epsilon-HOT proofreading complex., Kirby TW, Harvey S, DeRose EF, Chalov S, Chikova AK, Perrino FW, Schaaper RM, London RE, Pedersen LC, J Biol Chem. 2006 Dec 15;281(50):38466-71. Epub 2006 Sep 13. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16973612 16973612]
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</div>
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[[Category: DNA-directed DNA polymerase]]
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<div class="pdbe-citations 2ido" style="background-color:#fffaf0;"></div>
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[[Category: Enterobacteria phage p21]]
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[[Category: Escherichia coli]]
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[[Category: Protein complex]]
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[[Category: Chalov, S.]]
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[[Category: Chikova, A K.]]
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[[Category: DeRose, E F.]]
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[[Category: Harvey, S.]]
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[[Category: Kirby, T W.]]
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[[Category: London, R E.]]
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[[Category: Pedersen, L C.]]
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[[Category: Perrino, F W.]]
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[[Category: Schaaper, R M.]]
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[[Category: EDO]]
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[[Category: MN]]
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[[Category: TMP]]
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[[Category: epsilon]]
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[[Category: exonuclease]]
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[[Category: hot]]
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[[Category: pol iii]]
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[[Category: polymerase]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 17:51:38 2008''
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==See Also==
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*[[DNA polymerase 3D structures|DNA polymerase 3D structures]]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Escherichia coli]]
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[[Category: Escherichia virus P1]]
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[[Category: Large Structures]]
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[[Category: Chalov S]]
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[[Category: Chikova AK]]
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[[Category: DeRose EF]]
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[[Category: Harvey S]]
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[[Category: Kirby TW]]
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[[Category: London RE]]
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[[Category: Pedersen LC]]
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[[Category: Perrino FW]]
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[[Category: Schaaper RM]]

Current revision

Structure of the E. coli Pol III epsilon-Hot proofreading complex

PDB ID 2ido

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