3aal: Difference between revisions

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


{{STRUCTURE_3aal| PDB=3aal | SCENE= }}
==Crystal Structure of endonuclease IV from Geobacillus kaustophilus==
<StructureSection load='3aal' size='340' side='right'caption='[[3aal]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[3aal]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Geobacillus_kaustophilus Geobacillus kaustophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3AAL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3AAL 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]] 1.6&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CAC:CACODYLATE+ION'>CAC</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</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=3aal FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3aal OCA], [https://pdbe.org/3aal PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3aal RCSB], [https://www.ebi.ac.uk/pdbsum/3aal PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3aal ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/END4_GEOKA END4_GEOKA] Endonuclease IV plays a role in DNA repair. It cleaves phosphodiester bonds at apurinic or apyrimidinic sites (AP sites) to produce new 5'-ends that are base-free deoxyribose 5-phosphate residues. It preferentially attacks modified AP sites created by bleomycin and neocarzinostatin.
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Endonuclease IV (EndoIV) is an endonuclease that acts at apurinic/apyrimidinic (AP) sites and is classified as either long-type or short-type. The crystal structures of representative types of EndoIV from Geobacillus kaustophilus and Thermus thermophilus HB8 were determined using X-ray crystallography. G. kaustophilus EndoIV (the long type) had a higher affinity for double-stranded DNA containing an AP-site analogue than T. thermophilus EndoIV (the short type). Structural analysis of the two different EndoIVs suggested that a C-terminal DNA-recognition loop that is only present in the long type contributes to its high affinity for AP sites. A mutation analysis showed that Lys267 in the C-terminal DNA-recognition loop plays an important role in DNA binding.


===Crystal Structure of endonuclease IV from Geobacillus kaustophilus===
An additional C-terminal loop in endonuclease IV, an apurinic/apyrimidinic endonuclease, controls binding affinity to DNA.,Asano R, Ishikawa H, Nakane S, Nakagawa N, Kuramitsu S, Masui R Acta Crystallogr D Biol Crystallogr. 2011 Mar;67(Pt 3):149-55. Epub 2011, Feb 15. PMID:21358045<ref>PMID:21358045</ref>


{{ABSTRACT_PUBMED_21358045}}
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 
</div>
==About this Structure==
<div class="pdbe-citations 3aal" style="background-color:#fffaf0;"></div>
[[3aal]] is a 1 chain structure of [[Endonuclease]] with sequence from [http://en.wikipedia.org/wiki/Geobacillus_kaustophilus Geobacillus kaustophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3AAL OCA].


==See Also==
==See Also==
*[[Endonuclease|Endonuclease]]
*[[Endonuclease 3D structures|Endonuclease 3D structures]]
 
== References ==
==Reference==
<references/>
<ref group="xtra">PMID:021358045</ref><references group="xtra"/>
__TOC__
</StructureSection>
[[Category: Geobacillus kaustophilus]]
[[Category: Geobacillus kaustophilus]]
[[Category: Asano, R.]]
[[Category: Large Structures]]
[[Category: Ishikawa, H.]]
[[Category: Asano R]]
[[Category: Kuramitsu, S.]]
[[Category: Ishikawa H]]
[[Category: Masui, R.]]
[[Category: Kuramitsu S]]
[[Category: Nakagawa, N.]]
[[Category: Masui R]]
[[Category: Nakane, S.]]
[[Category: Nakagawa N]]
[[Category: RSGI, RIKEN Structural Genomics/Proteomics Initiative.]]
[[Category: Nakane S]]
[[Category: Base excision repair]]
[[Category: Dna damage]]
[[Category: Dna repair]]
[[Category: Endoiv]]
[[Category: Endonuclease]]
[[Category: Hydrolase]]
[[Category: Metal-binding]]
[[Category: National project on protein structural and functional analyse]]
[[Category: Nppsfa]]
[[Category: Nuclease]]
[[Category: Riken structural genomics/proteomics initiative]]
[[Category: Rsgi]]
[[Category: Structural genomic]]
[[Category: Tim barrel]]
Retrieved from "https://proteopedia.org/3aal"