3hjr: Difference between revisions

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

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-{{Seed}}
-[[Image:3hjr.jpg|left|200px]]
-<!--
+==Crystal structure of serine protease of Aeromonas sobria==
-The line below this paragraph, containing "STRUCTURE_3hjr", creates the "Structure Box" on the page.
+<StructureSection load='3hjr' size='340' side='right'caption='[[3hjr]], [[Resolution|resolution]] 1.65&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'>[[3hjr]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Aerso Aerso]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2oxa 2oxa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HJR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3HJR FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><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>
--->
+<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">ASP ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=646 AERSO])</td></tr>
-{{STRUCTURE_3hjr|  PDB=3hjr  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3hjr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hjr OCA], [https://pdbe.org/3hjr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3hjr RCSB], [https://www.ebi.ac.uk/pdbsum/3hjr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3hjr ProSAT]</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/hj/3hjr_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=3hjr ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The anaerobic bacterium Aeromonas sobria is known to cause potentially lethal septic shock. We recently proposed that A. sobria serine protease (ASP) is a sepsis-related factor that induces vascular leakage, reductions in blood pressure via kinin release, and clotting via activation of prothrombin. ASP preferentially cleaves peptide bonds that follow dibasic amino acid residues, as do Kex2 (Saccharomyces cerevisiae serine protease) and furin, which are representative kexin family proteases. Here, we revealed the crystal structure of ASP at 1.65 A resolution using the multiple isomorphous replacement method with anomalous scattering. Although the overall structure of ASP resembles that of Kex2, it has a unique extra occluding region close to its active site. Moreover, we found that a nicked ASP variant is cleaved within the occluding region. Nicked ASP shows a greater ability to cleave small peptide substrates than the native enzyme. On the other hand, the cleavage pattern for prekallikrein differs from that of ASP, suggesting the occluding region is important for substrate recognition. The extra occluding region of ASP is unique and could serve as a useful target to facilitate development of novel antisepsis drugs.
-===Crystal structure of serine protease of Aeromonas sobria===
+Structural basis for the kexin-like serine protease from Aeromonas sobria as sepsis-causing factor.,Kobayashi H, Utsunomiya H, Yamanaka H, Sei Y, Katunuma N, Okamoto K, Tsuge H J Biol Chem. 2009 Oct 2;284(40):27655-63. Epub 2009 Aug 4. PMID:19654332<ref>PMID:19654332</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-==About this Structure==
+</div>
-HJR is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Aeromonas_sobria Aeromonas sobria]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2oxa 2oxa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HJR OCA].
+<div class="pdbe-citations 3hjr" style="background-color:#fffaf0;"></div>
-[[Category: Aeromonas sobria]]
+== References ==
-[[Category: Kobayashi, H.]]
+<references/>
-[[Category: Okamoto, K.]]
+__TOC__
-[[Category: Tsuge, H.]]
+</StructureSection>
-[[Category: Utsunomiya, H.]]
+[[Category: Aerso]]
+[[Category: Large Structures]]
+[[Category: Kobayashi, H]]
+[[Category: Okamoto, K]]
+[[Category: Tsuge, H]]
+[[Category: Utsunomiya, H]]
 [[Category: Hydrolase]]
 [[Category: Kexin]]
 [[Category: Protease]]
 [[Category: Serine protease]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Jun  4 07:21:51 2009''