1yxh

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
m (Protected "1yxh" [edit=sysop:move=sysop])
Current revision (07:43, 30 October 2024) (edit) (undo)
 
(10 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1yxh.png|left|200px]]
 
-
<!--
+
==Crystal structure of a novel phospholipase A2 from Naja naja sagittifera with a strong anticoagulant activity==
-
The line below this paragraph, containing "STRUCTURE_1yxh", creates the "Structure Box" on the page.
+
<StructureSection load='1yxh' size='340' side='right'caption='[[1yxh]], [[Resolution|resolution]] 1.86&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'>[[1yxh]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Naja_sagittifera Naja sagittifera]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YXH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YXH 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]] 1.86&#8491;</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>, <scene name='pdbligand=EOH:ETHANOL'>EOH</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-
{{STRUCTURE_1yxh| PDB=1yxh | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1yxh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yxh OCA], [https://pdbe.org/1yxh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1yxh RCSB], [https://www.ebi.ac.uk/pdbsum/1yxh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1yxh ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/PA2A4_NAJSG PA2A4_NAJSG]
 +
== 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/yx/1yxh_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=1yxh ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
This is the first PLA(2) crystal structure from group I that shows a strong anticoagulant property. The monomeric PLA(2) was purified from the venom of Naja naja sagittifera (Indian cobra). Its amino acid sequence has been determined using cDNA technique. The amino acid sequence of sPLA(2) contains three positively charged and two negatively charged residues in the segment 54-71 (numbering scheme of sPLA(2)) thus giving this region an overall cationic amphiphilic surface. This suggested the presence of an anticoagulant activity in sPLA(2). The enzyme was crystallized using hanging drop vapour diffusion method in the presence of calcium chloride. The crystals belong to space group P4(1) with cell dimensions of a=b=42.0A, c=65.9A. The X-ray crystal structure was determined at 1.8A resolution using molecular replacement method and refined to an R value of 0.179 for 10,023 reflections. The overall scaffolding of sPLA(2) is essentially similar to those observed for other group I PLA(2)s. However, the conformations of various surface loops were found to be significantly different. The most significant observation pertains to the anticoagulant loop in which both the acidic residues are engaged in intramolecular interactions whereas all the three basic residues are free to interact with other molecules. This makes the sPLA(2) a potentially strong anticoagulating molecule.
-
===Crystal structure of a novel phospholipase A2 from Naja naja sagittifera with a strong anticoagulant activity===
+
Crystal structure of a novel phospholipase A2 from Naja naja sagittifera with a strong anticoagulant activity.,Jabeen T, Singh N, Singh RK, Ethayathulla AS, Sharma S, Srinivasan A, Singh TP Toxicon. 2005 Dec 15;46(8):865-75. Epub 2005 Nov 2. PMID:16269164<ref>PMID:16269164</ref>
-
 
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
<!--
+
</div>
-
The line below this paragraph, {{ABSTRACT_PUBMED_16269164}}, adds the Publication Abstract to the page
+
<div class="pdbe-citations 1yxh" style="background-color:#fffaf0;"></div>
-
(as it appears on PubMed at http://www.pubmed.gov), where 16269164 is the PubMed ID number.
+
-
-->
+
-
{{ABSTRACT_PUBMED_16269164}}
+
-
 
+
-
==About this Structure==
+
-
[[1yxh]] is a 1 chain structure of [[Phospholipase A2]] with sequence from [http://en.wikipedia.org/wiki/Naja_sagittifera Naja sagittifera]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YXH OCA].
+
==See Also==
==See Also==
-
*[[Phospholipase A2]]
+
*[[Phospholipase A2|Phospholipase A2]]
-
 
+
*[[Phospholipase A2 3D structures|Phospholipase A2 3D structures]]
-
==Reference==
+
== References ==
-
<ref group="xtra">PMID:16269164</ref><references group="xtra"/>
+
<references/>
 +
__TOC__
 +
</StructureSection>
 +
[[Category: Large Structures]]
[[Category: Naja sagittifera]]
[[Category: Naja sagittifera]]
-
[[Category: Jabeen, T.]]
+
[[Category: Jabeen T]]
-
[[Category: Sharma, S.]]
+
[[Category: Sharma S]]
-
[[Category: Singh, N.]]
+
[[Category: Singh N]]
-
[[Category: Singh, R K.]]
+
[[Category: Singh RK]]
-
[[Category: Singh, T P.]]
+
[[Category: Singh TP]]
-
[[Category: Srinivasan, A.]]
+
[[Category: Srinivasan A]]
-
[[Category: Anticoagulation]]
+
-
[[Category: Hydrolase]]
+
-
[[Category: Monomer]]
+
-
[[Category: Pla2]]
+

Current revision

Crystal structure of a novel phospholipase A2 from Naja naja sagittifera with a strong anticoagulant activity

PDB ID 1yxh

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1yxh"
Personal tools