2vh4: Difference between revisions

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

OCA

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-[[Image:2vh4.jpg|left|200px]]<br /><applet load="2vh4" size="350" color="white" frame="true" align="right" spinBox="true"
-caption="2vh4, resolution 2.45&Aring;" />
-'''STRUCTURE OF A LOOP C-SHEET SERPIN POLYMER'''<br />
-==About this Structure==
+==Structure of a loop C-sheet serpin polymer==
-VH4 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Thermoanaerobacter_tengcongensis Thermoanaerobacter tengcongensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VH4 OCA].
+<StructureSection load='2vh4' size='340' side='right'caption='[[2vh4]], [[Resolution|resolution]] 2.45&Aring;' scene=''>
-[[Category: Single protein]]
+== Structural highlights ==
-[[Category: Thermoanaerobacter tengcongensis]]
+<table><tr><td colspan='2'>[[2vh4]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Caldanaerobacter_subterraneus_subsp._tengcongensis_MB4 Caldanaerobacter subterraneus subsp. tengcongensis MB4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VH4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VH4 FirstGlance]. <br>
-[[Category: Bottomley, S.P.]]
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.45&#8491;</td></tr>
-[[Category: Buckle, A.M.]]
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2vh4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vh4 OCA], [https://pdbe.org/2vh4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vh4 RCSB], [https://www.ebi.ac.uk/pdbsum/2vh4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vh4 ProSAT]</span></td></tr>
-[[Category: Law, R.H.P.]]
+</table>
-[[Category: Whisstock, J.C.]]
+== Function ==
-[[Category: Zhang, Q.W.]]
+[https://www.uniprot.org/uniprot/Q8R9P5_CALS4 Q8R9P5_CALS4]
-[[Category: c sheet polymer]]
+== Evolutionary Conservation ==
-[[Category: hydrolase inhibitor]]
+[[Image:Consurf_key_small.gif|200px|right]]
-[[Category: latent conformation]]
+Check<jmol>
-[[Category: serpin]]
+  <jmolCheckbox>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/vh/2vh4_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=2vh4 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+In this study, we report the X-ray crystal structure of an N-terminally truncated variant of the bacterial serpin, tengpin (tengpinDelta42). Our data reveal that tengpinDelta42 adopts a variation of the latent conformation in which the reactive center loop is hyperinserted into the A beta-sheet and removed from the vicinity of the C-sheet. This conformational change leaves the C beta-sheet completely exposed and permits antiparallel edge-strand interactions between the exposed portion of the reactive center loop of one molecule and strand s2C of the C beta-sheet of the neighboring molecule in the crystal lattice. Our structural data thus reveal that tengpinDelta42 forms a loop C-sheet polymer in the crystal lattice. In vivo serpins have a propensity to misfold and form long-chain polymers, a process that underlies serpinopathies such as emphysema, thrombosis and dementia. Native serpins are thought to polymerize via a loop A-sheet mechanism. However, studies on plasminogen activator inhibitor 1 and the S49P variant of human neuroserpin reveal that the latent form of these molecules can also polymerize. Polymerization of latent neuroserpin may be important for the development of familial encephalopathy with neuroserpin inclusion bodies. Our structural data provide a possible mechanism for polymerization by latent serpins.
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 23 11:04:25 2008''
+A structural basis for loop C-sheet polymerization in serpins.,Zhang Q, Law RH, Bottomley SP, Whisstock JC, Buckle AM J Mol Biol. 2008 Mar 7;376(5):1348-59. Epub 2008 Jan 3. PMID:18234218<ref>PMID:18234218</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 2vh4" style="background-color:#fffaf0;"></div>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Caldanaerobacter subterraneus subsp. tengcongensis MB4]]
+[[Category: Large Structures]]
+[[Category: Bottomley SP]]
+[[Category: Buckle AM]]
+[[Category: Law RHP]]
+[[Category: Whisstock JC]]
+[[Category: Zhang Q]]