1zlb

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (07:32, 9 October 2024) (edit) (undo)
 
(16 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1zlb.gif|left|200px]]
 
-
{{Structure
+
==Crystal structure of catalytically-active phospholipase A2 in the absence of calcium==
-
|PDB= 1zlb |SIZE=350|CAPTION= <scene name='initialview01'>1zlb</scene>, resolution 0.97&Aring;
+
<StructureSection load='1zlb' size='340' side='right'caption='[[1zlb]], [[Resolution|resolution]] 0.97&Aring;' scene=''>
-
|SITE=
+
== Structural highlights ==
-
|LIGAND=
+
<table><tr><td colspan='2'>[[1zlb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bothrops_jararacussu Bothrops jararacussu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZLB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ZLB FirstGlance]. <br>
-
|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Phospholipase_A(2) Phospholipase A(2)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.1.4 3.1.1.4] </span>
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 0.97&#8491;</td></tr>
-
|GENE=
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1zlb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zlb OCA], [https://pdbe.org/1zlb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1zlb RCSB], [https://www.ebi.ac.uk/pdbsum/1zlb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1zlb ProSAT]</span></td></tr>
-
|DOMAIN=
+
</table>
-
|RELATEDENTRY=[[1umv|1UMV]], [[1zl7|1ZL7]]
+
== Function ==
-
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1zlb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zlb OCA], [http://www.ebi.ac.uk/pdbsum/1zlb PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1zlb RCSB]</span>
+
[https://www.uniprot.org/uniprot/PA2A_BOTJR PA2A_BOTJR] Snake venom phospholipase A2 (PLA2) that induces edema (activity that is inhibited by EDTA and dexamethasone), inhibits phospholipid-dependent collagen/ADP-induced platelet aggregation, possess hypotensive as well as anticoagulant activities. In addition, this enzyme shows bactericidal activity against E.coli and S.aureus. PLA2 catalyzes the calcium-dependent hydrolysis of the 2-acyl groups in 3-sn-phosphoglycerides.<ref>PMID:12167491</ref> <ref>PMID:15214498</ref>
-
}}
+
== 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/zl/1zlb_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=1zlb ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
The electrophile Ca(2+) is an essential multifunctional co-factor in the phospholipase A(2) mediated hydrolysis of phospholipids. Crystal structures of an acidic phospholipase A(2) from the venom of Bothrops jararacussu have been determined both in the Ca(2+) free and bound states at 0.97 and 1.60 A resolutions, respectively. In the Ca(2+) bound state, the Ca(2+) ion is penta-coordinated by a distorted pyramidal cage of oxygen and nitrogen atoms that is significantly different to that observed in structures of other Group I/II phospholipases A(2). In the absence of Ca(2+), a water molecule occupies the position of the Ca(2+) ion and the side chain of Asp49 and the calcium-binding loop adopts a different conformation.
-
'''Crystal structure of catalytically-active phospholipase A2 in the absence of calcium'''
+
Insights into metal ion binding in phospholipases A2: ultra high-resolution crystal structures of an acidic phospholipase A2 in the Ca2+ free and bound states.,Murakami MT, Gabdoulkhakov A, Genov N, Cintra AC, Betzel C, Arni RK Biochimie. 2006 May;88(5):543-9. Epub 2005 Dec 5. PMID:16376474<ref>PMID:16376474</ref>
 +
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 +
</div>
 +
<div class="pdbe-citations 1zlb" style="background-color:#fffaf0;"></div>
-
==Overview==
+
==See Also==
-
The electrophile Ca(2+) is an essential multifunctional co-factor in the phospholipase A(2) mediated hydrolysis of phospholipids. Crystal structures of an acidic phospholipase A(2) from the venom of Bothrops jararacussu have been determined both in the Ca(2+) free and bound states at 0.97 and 1.60 A resolutions, respectively. In the Ca(2+) bound state, the Ca(2+) ion is penta-coordinated by a distorted pyramidal cage of oxygen and nitrogen atoms that is significantly different to that observed in structures of other Group I/II phospholipases A(2). In the absence of Ca(2+), a water molecule occupies the position of the Ca(2+) ion and the side chain of Asp49 and the calcium-binding loop adopts a different conformation.
+
*[[Phospholipase A2 3D structures|Phospholipase A2 3D structures]]
-
 
+
== References ==
-
==About this Structure==
+
<references/>
-
1ZLB is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Bothrops_jararacussu Bothrops jararacussu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZLB OCA].
+
__TOC__
-
 
+
</StructureSection>
-
==Reference==
+
-
Insights into metal ion binding in phospholipases A2: ultra high-resolution crystal structures of an acidic phospholipase A2 in the Ca2+ free and bound states., Murakami MT, Gabdoulkhakov A, Genov N, Cintra AC, Betzel C, Arni RK, Biochimie. 2006 May;88(5):543-9. Epub 2005 Dec 5. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16376474 16376474]
+
[[Category: Bothrops jararacussu]]
[[Category: Bothrops jararacussu]]
-
[[Category: Phospholipase A(2)]]
+
[[Category: Large Structures]]
-
[[Category: Single protein]]
+
[[Category: Arni RK]]
-
[[Category: Arni, R K.]]
+
[[Category: Betzel C]]
-
[[Category: Betzel, C.]]
+
[[Category: Cintra AC]]
-
[[Category: Cintra, A C.]]
+
[[Category: Gabdoulkhakov A]]
-
[[Category: Gabdoulkhakov, A.]]
+
[[Category: Genov N]]
-
[[Category: Genov, N.]]
+
[[Category: Murakami MT]]
-
[[Category: Murakami, M T.]]
+
-
[[Category: asp49-pla2]]
+
-
[[Category: snake venom]]
+
-
[[Category: toxin]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 01:38:13 2008''
+

Current revision

Crystal structure of catalytically-active phospholipase A2 in the absence of calcium

PDB ID 1zlb

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/1zlb"
Personal tools