1u3e: Difference between revisions

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New page: left|200px<br /><applet load="1u3e" size="450" color="white" frame="true" align="right" spinBox="true" caption="1u3e, resolution 2.92Å" /> '''DNA binding and clea...
 
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[[Image:1u3e.gif|left|200px]]<br /><applet load="1u3e" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1u3e, resolution 2.92&Aring;" />
'''DNA binding and cleavage by the HNH homing endonuclease I-HmuI'''<br />


==Overview==
==DNA binding and cleavage by the HNH homing endonuclease I-HmuI==
The structure of I-HmuI, which represents the last family of homing, endonucleases without a defining crystallographic structure, has been, determined in complex with its DNA target. A series of diverse protein, structural domains and motifs, contacting sequential stretches of, nucleotide bases, are distributed along the DNA target. I-HmuI contains an, N-terminal domain with a DNA-binding surface found in the I-PpoI homing, endonuclease and an associated HNH/N active site found in the bacterial, colicins, and a C-terminal DNA-binding domain previously observed in the, I-TevI homing endonuclease. The combination and exchange of these features, between protein families indicates that the genetic mobility associated, with homing endonucleases extends to the level of independent structural, domains. I-HmuI provides an unambiguous structural connection between the, His-Cys box endonucleases and the bacterial colicins, supporting the, hypothesis that these enzymes diverged from a common ancestral nuclease.
<StructureSection load='1u3e' size='340' side='right'caption='[[1u3e]], [[Resolution|resolution]] 2.92&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1u3e]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_virus_SPO1 Bacillus virus SPO1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1U3E OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1U3E 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]] 2.92&#8491;</td></tr>
<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=SR:STRONTIUM+ION'>SR</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</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=1u3e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1u3e OCA], [https://pdbe.org/1u3e PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1u3e RCSB], [https://www.ebi.ac.uk/pdbsum/1u3e PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1u3e ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/HMUI_BPSP1 HMUI_BPSP1]
== 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/u3/1u3e_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=1u3e ConSurf].
<div style="clear:both"></div>


==About this Structure==
==See Also==
1U3E is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_sp6 Enterobacteria phage sp6] with MN, SR, EDO and TRS as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1U3E OCA].
*[[Endonuclease 3D structures|Endonuclease 3D structures]]
 
__TOC__
==Reference==
</StructureSection>
DNA binding and cleavage by the HNH homing endonuclease I-HmuI., Shen BW, Landthaler M, Shub DA, Stoddard BL, J Mol Biol. 2004 Sep 3;342(1):43-56. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15313606 15313606]
[[Category: Bacillus virus SPO1]]
[[Category: Enterobacteria phage sp6]]
[[Category: Large Structures]]
[[Category: Single protein]]
[[Category: Landthaler M]]
[[Category: Landthaler, M.]]
[[Category: Shen BW]]
[[Category: Shen, B.W.]]
[[Category: Shub DA]]
[[Category: Shub, D.A.]]
[[Category: Stoddard BL]]
[[Category: Stoddard, B.L.]]
[[Category: EDO]]
[[Category: MN]]
[[Category: SR]]
[[Category: TRS]]
[[Category: helix-turn-helix dna binding domain]]
[[Category: hnh catalytic motif]]
[[Category: protein-dna complex]]
 
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Retrieved from "https://proteopedia.org/1u3e"