3kde: Difference between revisions

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[[Image:3kde.png|left|200px]]


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==Crystal structure of the THAP domain from D. melanogaster P-element transposase in complex with its natural DNA binding site==
The line below this paragraph, containing "STRUCTURE_3kde", creates the "Structure Box" on the page.
<StructureSection load='3kde' size='340' side='right'caption='[[3kde]], [[Resolution|resolution]] 1.74&Aring;' scene=''>
You may change the PDB parameter (which sets the PDB file loaded into the applet)
== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[3kde]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KDE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3KDE FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.74&#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=BRU:5-BROMO-2-DEOXYURIDINE-5-MONOPHOSPHATE'>BRU</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
{{STRUCTURE_3kde| PDB=3kde |  SCENE= }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3kde FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kde OCA], [https://pdbe.org/3kde PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3kde RCSB], [https://www.ebi.ac.uk/pdbsum/3kde PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3kde ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/PELET_DROME PELET_DROME] P-element transposase that specifically mediates transposition of P-elements. Mediates both; precise and imprecise excision.<ref>PMID:2416475</ref> <ref>PMID:20010837</ref>  
== 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/kd/3kde_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=3kde ConSurf].
<div style="clear:both"></div>


===Crystal structure of the THAP domain from D. melanogaster P-element transposase in complex with its natural DNA binding site===
==See Also==
 
*[[Transposase 3D structures|Transposase 3D structures]]
 
== References ==
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(as it appears on PubMed at http://www.pubmed.gov), where 20010837 is the PubMed ID number.
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{{ABSTRACT_PUBMED_20010837}}
 
==About this Structure==
[[3kde]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KDE OCA].
 
==Reference==
<ref group="xtra">PMID:020010837</ref><references group="xtra"/>
[[Category: Drosophila melanogaster]]
[[Category: Drosophila melanogaster]]
[[Category: Berger, J M.]]
[[Category: Large Structures]]
[[Category: Lyubimov, A Y.]]
[[Category: Berger JM]]
[[Category: Rio, D C.]]
[[Category: Lyubimov AY]]
[[Category: Sabogal, A.]]
[[Category: Rio DC]]
[[Category: Beta-alpha-beta]]
[[Category: Sabogal A]]
[[Category: Dna binding protein-dna complex]]
[[Category: Dna integration]]
[[Category: Dna recombination]]
[[Category: Dna-binding]]
[[Category: Dna-binding domain]]
[[Category: Metal-binding]]
[[Category: P-element transposase]]
[[Category: Thap domain]]
[[Category: Zinc-finger]]

Latest revision as of 13:16, 21 February 2024

Crystal structure of the THAP domain from D. melanogaster P-element transposase in complex with its natural DNA binding siteCrystal structure of the THAP domain from D. melanogaster P-element transposase in complex with its natural DNA binding site

Structural highlights

3kde is a 3 chain structure with sequence from Drosophila melanogaster. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.74Å
Ligands:,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

PELET_DROME P-element transposase that specifically mediates transposition of P-elements. Mediates both; precise and imprecise excision.[1] [2]

Evolutionary Conservation

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

See Also

References

  1. ↑ Rio DC, Laski FA, Rubin GM. Identification and immunochemical analysis of biologically active Drosophila P element transposase. Cell. 1986 Jan 17;44(1):21-32. PMID:2416475
  2. ↑ Sabogal A, Lyubimov AY, Corn JE, Berger JM, Rio DC. THAP proteins target specific DNA sites through bipartite recognition of adjacent major and minor grooves. Nat Struct Mol Biol. 2010 Jan;17(1):117-23. Epub 2009 Dec 13. PMID:20010837 doi:10.1038/nsmb.1742

3kde, resolution 1.74Å

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