1tdv: Difference between revisions

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-[[Image:1tdv.png|left|200px]]
-<!--
+==Non-specific binding to phospholipase A2:Crystal structure of the complex of PLA2 with a designed peptide Tyr-Trp-Ala-Ala-Ala-Ala at 1.7A resolution==
-The line below this paragraph, containing "STRUCTURE_1tdv", creates the "Structure Box" on the page.
+<StructureSection load='1tdv' size='340' side='right'caption='[[1tdv]], [[Resolution|resolution]] 1.70&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'>[[1tdv]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Daboia_russelii_pulchella Daboia russelii pulchella]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TDV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1TDV FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.7&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-{{STRUCTURE_1tdv|  PDB=1tdv  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1tdv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1tdv OCA], [https://pdbe.org/1tdv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1tdv RCSB], [https://www.ebi.ac.uk/pdbsum/1tdv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1tdv ProSAT]</span></td></tr>
+</table>
-===Non-specific binding to phospholipase A2:Crystal structure of the complex of PLA2 with a designed peptide Tyr-Trp-Ala-Ala-Ala-Ala at 1.7A resolution===
+== Function ==
+[https://www.uniprot.org/uniprot/PA2B8_DABRR PA2B8_DABRR] Snake venom phospholipase A2 (PLA2) that shows weak neurotoxicity and medium anticoagulant effects by binding to factor Xa (F10) and inhibiting the prothrombinase activity (IC(50) is 130 nM) (PubMed:18062812). It also damages vital organs such as lung, liver and kidney, displays edema-inducing activities when injected into the foot pads of mice and induces necrosis of muscle cells when injected into the thigh muscle. Has a low enzymatic activity. PLA2 catalyzes the calcium-dependent hydrolysis of the 2-acyl groups in 3-sn-phosphoglycerides.<ref>PMID:18062812</ref> <ref>PMID:2115497</ref> <ref>PMID:8835338</ref>
+== Evolutionary Conservation ==
-==About this Structure==
+[[Image:Consurf_key_small.gif|200px|right]]
-[[1tdv]] is a 2 chain structure of [[Phospholipase A2]] with sequence from [http://en.wikipedia.org/wiki/Daboia_russellii_pulchella Daboia russellii pulchella]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TDV OCA].
+Check<jmol>
+  <jmolCheckbox>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/td/1tdv_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=1tdv ConSurf].
+<div style="clear:both"></div>
 ==See Also==
-*[[Phospholipase A2]]
+*[[Phospholipase A2 3D structures|Phospholipase A2 3D structures]]
-[[Category: Daboia russellii pulchella]]
+== References ==
-[[Category: Betzel, C.]]
+<references/>
-[[Category: Dey, S.]]
+__TOC__
-[[Category: Ethayathulla, A S.]]
+</StructureSection>
-[[Category: Jabeen, T.]]
+[[Category: Daboia russelii pulchella]]
-[[Category: Perbandt, M.]]
+[[Category: Large Structures]]
-[[Category: Sharma, S.]]
+[[Category: Betzel C]]
-[[Category: Singh, N.]]
+[[Category: Dey S]]
-[[Category: Singh, T P.]]
+[[Category: Ethayathulla AS]]
-[[Category: Somvanshi, R K.]]
+[[Category: Jabeen T]]
-[[Category: Hydrolase]]
+[[Category: Perbandt M]]
-[[Category: Non-specific]]
+[[Category: Sharma S]]
-[[Category: Phospholipase a2]]
+[[Category: Singh N]]
-[[Category: Ywaaaa complex]]
+[[Category: Singh TP]]
+[[Category: Somvanshi RK]]