1eb6: Difference between revisions

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[[Image:1eb6.gif|left|200px]]<br />
<applet load="1eb6" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1eb6, resolution 1.00&Aring;" />
'''DEUTEROLYSIN FROM ASPERGILLUS ORYZAE'''<br />


==Overview==
==Deuterolysin from Aspergillus oryzae==
A data set from the metalloproteinase deuterolysin was collected at atomic, resolution (1.0 A) with synchrotron radiation. The high resolution allowed, the structure to be solved with the new direct-methods program ACORN using, the coordinates of the Zn atom as a starting point. The phases obtained, from ACORN were of sufficient quality to allow automated building to be, carried out in ARP/wARP. Minimal manual rebuilding of the model was, required and the structure determination was completed using the, maximum-likelihood refinement program REFMAC. The whole process, starting, from the processed and merged data and ending with a refined model, required less than 6 h of computational time.
<StructureSection load='1eb6' size='340' side='right'caption='[[1eb6]], [[Resolution|resolution]] 1.00&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1eb6]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Aspergillus_oryzae Aspergillus oryzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EB6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1EB6 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&#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=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=1eb6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1eb6 OCA], [https://pdbe.org/1eb6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1eb6 RCSB], [https://www.ebi.ac.uk/pdbsum/1eb6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1eb6 ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/NPII_ASPOR NPII_ASPOR] Metalloprotease that shows high activities on basic nuclear substrates such as histone and protamine.
== 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/eb/1eb6_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=1eb6 ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
A data set from the metalloproteinase deuterolysin was collected at atomic resolution (1.0 A) with synchrotron radiation. The high resolution allowed the structure to be solved with the new direct-methods program ACORN using the coordinates of the Zn atom as a starting point. The phases obtained from ACORN were of sufficient quality to allow automated building to be carried out in ARP/wARP. Minimal manual rebuilding of the model was required and the structure determination was completed using the maximum-likelihood refinement program REFMAC. The whole process, starting from the processed and merged data and ending with a refined model, required less than 6 h of computational time.


==About this Structure==
A quick solution: ab initio structure determination of a 19 kDa metalloproteinase using ACORN.,McAuley KE, Jia-Xing Y, Dodson EJ, Lehmbeck J, Ostergaard PR, Wilson KS Acta Crystallogr D Biol Crystallogr. 2001 Nov;57(Pt 11):1571-8. Epub 2001, Oct 25. PMID:11679721<ref>PMID:11679721</ref>
1EB6 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Aspergillus_oryzae Aspergillus oryzae] with ZN and EDO as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Deuterolysin Deuterolysin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.24.39 3.4.24.39] Structure known Active Site: ZN. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1EB6 OCA].


==Reference==
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
A quick solution: ab initio structure determination of a 19 kDa metalloproteinase using ACORN., McAuley KE, Jia-Xing Y, Dodson EJ, Lehmbeck J, Ostergaard PR, Wilson KS, Acta Crystallogr D Biol Crystallogr. 2001 Nov;57(Pt 11):1571-8. Epub 2001, Oct 25. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11679721 11679721]
</div>
<div class="pdbe-citations 1eb6" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Aspergillus oryzae]]
[[Category: Aspergillus oryzae]]
[[Category: Deuterolysin]]
[[Category: Large Structures]]
[[Category: Single protein]]
[[Category: Dodson EJ]]
[[Category: Dodson, E.J.]]
[[Category: Jia-Xing Y]]
[[Category: Jia-Xing, Y.]]
[[Category: Lehmbeck J]]
[[Category: Lehmbeck, J.]]
[[Category: McAuley KE]]
[[Category: Mcauley, K.E.]]
[[Category: Ostergaard PR]]
[[Category: Ostergaard, P.R.]]
[[Category: Wilson KS]]
[[Category: Wilson, K.S.]]
[[Category: EDO]]
[[Category: ZN]]
[[Category: hydrolase]]
[[Category: metalloproteinase]]
[[Category: neutral protease ii]]
[[Category: zinc]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Mon Nov  5 13:09:21 2007''

Latest revision as of 08:18, 9 April 2025

Deuterolysin from Aspergillus oryzae

1eb6, resolution 1.00Å

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