1en7: Difference between revisions

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New page: left|200px<br /><applet load="1en7" size="450" color="white" frame="true" align="right" spinBox="true" caption="1en7, resolution 2.4Å" /> '''ENDONUCLEASE VII (END...
 
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[[Image:1en7.jpg|left|200px]]<br /><applet load="1en7" size="450" color="white" frame="true" align="right" spinBox="true"
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'''ENDONUCLEASE VII (ENDOVII) FROM PHAGE T4'''<br />


==Overview==
==ENDONUCLEASE VII (ENDOVII) FROM PHAGE T4==
Phage T4 endonuclease VII (Endo VII), the first enzyme shown to resolve, Holliday junctions, recognizes a broad spectrum of DNA substrates ranging, from branched DNAs to single base mismatches. We have determined the, crystal structures of the Ca2+-bound wild-type and the inactive N62D, mutant enzymes at 2.4 and 2.1 A, respectively. The Endo VII monomers form, an elongated, highly intertwined molecular dimer exhibiting extreme domain, swapping. The major dimerization elements are two pairs of antiparallel, helices forming a novel 'four-helix cross' motif. The unique monomer fold, almost completely lacking beta-sheet structure and containing a zinc ion, tetrahedrally coordinated to four cysteines, does not resemble any of the, known junction-resolving enzymes, including the Escherichia coli RuvC and, lambda integrase-type recombinases. The S-shaped dimer has two 'binding, bays' separated by approximately 25 A which are lined by positively, charged residues and contain near their base residues known to be, essential for activity. These include Asp40 and Asn62, which function as, ligands for the bound calcium ions. A pronounced bipolar charge, distribution suggests that branched DNA substrates bind to the positively, charged face with the scissile phosphates located near the divalent, cations. A model for the complex with a four-way DNA junction is, presented.
<StructureSection load='1en7' size='340' side='right'caption='[[1en7]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1en7]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_T4 Escherichia virus T4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EN7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1EN7 FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.4&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1en7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1en7 OCA], [https://pdbe.org/1en7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1en7 RCSB], [https://www.ebi.ac.uk/pdbsum/1en7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1en7 ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/END7_BPT4 END7_BPT4] Cleaves DNA cruciform and Y-structures as well as heteroduplex loops. Resolves Holliday junctions, recognizes a broad spectrum of DNA substrates ranging from branched DNAs to single base mismatches.
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/en/1en7_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
    <text>to colour the structure by Evolutionary Conservation</text>
  </jmolCheckbox>
</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=1en7 ConSurf].
<div style="clear:both"></div>


==About this Structure==
==See Also==
1EN7 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Bacteriophage_t4 Bacteriophage t4] with ZN and CA as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Crossover_junction_endodeoxyribonuclease Crossover junction endodeoxyribonuclease], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.22.4 3.1.22.4] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1EN7 OCA].
*[[Endonuclease 3D structures|Endonuclease 3D structures]]
 
__TOC__
==Reference==
</StructureSection>
X-ray structure of T4 endonuclease VII: a DNA junction resolvase with a novel fold and unusual domain-swapped dimer architecture., Raaijmakers H, Vix O, Toro I, Golz S, Kemper B, Suck D, EMBO J. 1999 Mar 15;18(6):1447-58. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=10075917 10075917]
[[Category: Escherichia virus T4]]
[[Category: Bacteriophage t4]]
[[Category: Large Structures]]
[[Category: Crossover junction endodeoxyribonuclease]]
[[Category: Raaijmakers H]]
[[Category: Single protein]]
[[Category: Suck D]]
[[Category: Raaijmakers, H.]]
[[Category: Toro I]]
[[Category: Suck, D.]]
[[Category: Vix O]]
[[Category: Toro, I.]]
[[Category: Vix, O.]]
[[Category: CA]]
[[Category: ZN]]
[[Category: dnase]]
[[Category: endonuclease]]
[[Category: holliday junction]]
[[Category: resolvase]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 14:08:33 2007''

Latest revision as of 08:58, 3 April 2024

ENDONUCLEASE VII (ENDOVII) FROM PHAGE T4ENDONUCLEASE VII (ENDOVII) FROM PHAGE T4

Structural highlights

1en7 is a 2 chain structure with sequence from Escherichia virus T4. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.4Å
Ligands:,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

END7_BPT4 Cleaves DNA cruciform and Y-structures as well as heteroduplex loops. Resolves Holliday junctions, recognizes a broad spectrum of DNA substrates ranging from branched DNAs to single base mismatches.

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

See Also

1en7, resolution 2.40Å

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