3eh8

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{{Seed}}
 
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[[Image:3eh8.jpg|left|200px]]
 
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==Crystal structure of Y2 I-AniI variant (F13Y/S111Y)/DNA complex with calcium==
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The line below this paragraph, containing "STRUCTURE_3eh8", creates the "Structure Box" on the page.
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<StructureSection load='3eh8' size='340' side='right'caption='[[3eh8]], [[Resolution|resolution]] 2.70&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[3eh8]] is a 9 chain structure with sequence from [https://en.wikipedia.org/wiki/Aspergillus_nidulans Aspergillus nidulans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EH8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3EH8 FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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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]] 2.7&#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=CA:CALCIUM+ION'>CA</scene></td></tr>
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{{STRUCTURE_3eh8| PDB=3eh8 | SCENE= }}
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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=3eh8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eh8 OCA], [https://pdbe.org/3eh8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3eh8 RCSB], [https://www.ebi.ac.uk/pdbsum/3eh8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3eh8 ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/ANI1_EMEND ANI1_EMEND] Mitochondrial DNA endonuclease and mRNA maturase involved in intron homing and required for splicing of the cytochrome b (cobA) gene intron, containing its own coding sequence. The protein stimulates the intrinsic ribozyme activity of the intron through binding to and stabilizing specific secondary and tertiary structure elements in the RNA. As an endonuclease it introduces a specific double-strand break at the junction of the two exons the cobA gene and thus mediates the insertion of an intron, containing its own coding sequence (group I intron), into an intronless gene. Recognizes with limited specificity and cleaves the sequence 5'-GAGGAGGTTTCTCTGTA-3'. The proteins RNA and DNA recognition and binding surfaces are independent.<ref>PMID:9256423</ref> <ref>PMID:10512698</ref> <ref>PMID:12758073</ref>
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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/eh/3eh8_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=3eh8 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 ==
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The LAGLIDADG homing endonuclease (LHE) I-AniI has adopted an extremely efficient secondary RNA splicing activity that is beneficial to its host, balanced against inefficient DNA cleavage. A selection experiment identified point mutations in the enzyme that act synergistically to improve endonuclease activity. The amino-acid substitutions increase target affinity, alter the thermal cleavage profile and significantly increase targeted recombination in transfected cells. The RNA splicing activity is not affected by these mutations. The improvement in DNA cleavage activity is largely focused on one of the enzyme's two active sites, corresponding to a rearrangement of a lysine residue hypothesized to act as a general base. Most of the constructs isolated in the screen contain one or more mutations that revert an amino-acid identity to a residue found in one or more close homologues of I-AniI. This implies that mutations that have previously reduced the endonuclease activity of I-AniI are identified and reversed, sometimes in combination with additional 'artificial' mutations, to optimize its in vivo activity.
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===Crystal structure of Y2 I-AniI variant (F13Y/S111Y)/DNA complex with calcium===
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Optimization of in vivo activity of a bifunctional homing endonuclease and maturase reverses evolutionary degradation.,Takeuchi R, Certo M, Caprara MG, Scharenberg AM, Stoddard BL Nucleic Acids Res. 2008 Dec 22. PMID:19103658<ref>PMID:19103658</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 3eh8" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_19103658}}, adds the Publication Abstract to the page
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*[[Endonuclease 3D structures|Endonuclease 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 19103658 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_19103658}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Aspergillus nidulans]]
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3EH8 is a 9 chains structure of sequences from [http://en.wikipedia.org/wiki/Emericella_nidulans Emericella nidulans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EH8 OCA].
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[[Category: Large Structures]]
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[[Category: Stoddard BL]]
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==Reference==
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[[Category: Takeuchi R]]
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Optimization of in vivo activity of a bifunctional homing endonuclease and maturase reverses evolutionary degradation., Takeuchi R, Certo M, Caprara MG, Scharenberg AM, Stoddard BL, Nucleic Acids Res. 2008 Dec 22. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/19103658 19103658]
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[[Category: Emericella nidulans]]
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[[Category: Stoddard, B L.]]
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[[Category: Takeuchi, R.]]
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[[Category: Endonuclease]]
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[[Category: Hydrolase]]
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[[Category: Hydrolase/dna complex]]
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[[Category: Intron homing]]
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[[Category: Mitochondrion]]
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[[Category: Mrna processing]]
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[[Category: Mrna splicing]]
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[[Category: Nuclease]]
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[[Category: Protein-dna complex]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 14 13:11:36 2009''
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Current revision

Crystal structure of Y2 I-AniI variant (F13Y/S111Y)/DNA complex with calcium

PDB ID 3eh8

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