3n55: Difference between revisions

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[[Image:3n55.png|left|200px]]
==SO1698 protein, an aspartic peptidase from Shewanella oneidensis.==
<StructureSection load='3n55' size='340' side='right' caption='[[3n55]], [[Resolution|resolution]] 1.57&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[3n55]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Shewanella_oneidensis Shewanella oneidensis]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2ai4 2ai4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3N55 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3N55 FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene></td></tr>
<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">SO_1698 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=70863 Shewanella oneidensis])</td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3n55 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3n55 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3n55 RCSB], [http://www.ebi.ac.uk/pdbsum/3n55 PDBsum]</span></td></tr>
</table>
== 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/n5/3n55_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/chain_selection.php?pdb_ID=2ata ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The crystal structure of SO1698 protein from Shewanella oneidensis was determined by a SAD method and refined to 1.57 A. The structure is a beta sandwich that unexpectedly consists of two polypeptides; the N-terminal fragment includes residues 1-116, and the C-terminal one includes residues 117-125. Electron density also displayed the Lys-98 side chain covalently linked to Asp-116. The putative active site residues involved in self-cleavage were identified; point mutants were produced and characterized structurally and in a biochemical assay. Numerical simulations utilizing molecular dynamics and hybrid quantum/classical calculations suggest a mechanism involving activation of a water molecule coordinated by a catalytic aspartic acid.


{{STRUCTURE_3n55|  PDB=3n55  |  SCENE=  }}
Characterization of member of DUF1888 protein family, self-cleaving and self-assembling endopeptidase.,Osipiuk J, Mulligan R, Bargassa M, Hamilton JE, Cunningham MA, Joachimiak A J Biol Chem. 2012 Jun 1;287(23):19452-61. Epub 2012 Apr 5. PMID:22493430<ref>PMID:22493430</ref>


===SO1698 protein, an aspartic peptidase from Shewanella oneidensis.===
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 
</div>
{{ABSTRACT_PUBMED_22493430}}
== References ==
 
<references/>
==About this Structure==
__TOC__
[[3n55]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Shewanella_oneidensis Shewanella oneidensis]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2ai4 2ai4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3N55 OCA].
</StructureSection>
[[Category: Shewanella oneidensis]]
[[Category: Shewanella oneidensis]]
[[Category: Collart, F.]]
[[Category: Collart, F]]
[[Category: Joachimiak, A.]]
[[Category: Joachimiak, A]]
[[Category: MCSG, Midwest Center for Structural Genomics.]]
[[Category: Structural genomic]]
[[Category: Mulligan, R.]]
[[Category: Mulligan, R]]
[[Category: Osipiuk, J.]]
[[Category: Osipiuk, J]]
[[Category: Aspartic peptidase]]
[[Category: Aspartic peptidase]]
[[Category: Autocatalysis]]
[[Category: Autocatalysis]]
[[Category: Hydrolase]]
[[Category: Hydrolase]]
[[Category: Mcsg]]
[[Category: Mcsg]]
[[Category: Midwest center for structural genomic]]
[[Category: PSI, Protein structure initiative]]
[[Category: Protein structure initiative]]
[[Category: Psi-2]]
[[Category: Structural genomic]]
Retrieved from "https://proteopedia.org/3n55"