1e1a

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Line 3: Line 3:
<StructureSection load='1e1a' size='340' side='right'caption='[[1e1a]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
<StructureSection load='1e1a' size='340' side='right'caption='[[1e1a]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[1e1a]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Common_european_squid Common european squid]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1E1A OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1E1A FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[1e1a]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Loligo_vulgaris Loligo vulgaris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1E1A OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1E1A FirstGlance]. <br>
-
</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>
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.8&#8491;</td></tr>
-
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Diisopropyl-fluorophosphatase Diisopropyl-fluorophosphatase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.8.2 3.1.8.2] </span></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='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1e1a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1e1a OCA], [https://pdbe.org/1e1a PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1e1a RCSB], [https://www.ebi.ac.uk/pdbsum/1e1a PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1e1a ProSAT]</span></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1e1a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1e1a OCA], [https://pdbe.org/1e1a PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1e1a RCSB], [https://www.ebi.ac.uk/pdbsum/1e1a PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1e1a ProSAT]</span></td></tr>
</table>
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/DFPA_LOLVU DFPA_LOLVU] Biological function and substrate unknown. However, it is capable of acting on phosphorus anhydride bonds (such as phosphorus-halide and phosphorus-cyanide) in organophosphorus compounds (including nerve gases).<ref>PMID:15966726</ref>
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
Line 18: Line 20:
</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=1e1a ConSurf].
</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=1e1a ConSurf].
<div style="clear:both"></div>
<div style="clear:both"></div>
-
<div style="background-color:#fffaf0;">
 
-
== Publication Abstract from PubMed ==
 
-
BACKGROUND: Phosphotriesterases (PTE) are enzymes capable of detoxifying organophosphate-based chemical warfare agents by hydrolysis. One subclass of these enzymes comprises the family of diisopropylfluorophosphatases (DFPases). The DFPase reported here was originally isolated from squid head ganglion of Loligo vulgaris and can be characterized as squid-type DFPase. It is capable of hydrolyzing the organophosphates diisopropylfluorophosphate, soman, sarin, tabun, and cyclosarin. RESULTS: Crystals were grown of both the native and the selenomethionine-labeled enzyme. The X-ray crystal structure of the DFPase from Loligo vulgaris has been solved by MAD phasing and refined to a crystallographic R value of 17.6% at a final resolution of 1.8 A. Using site-directed mutagenesis, we have structurally and functionally characterized essential residues in the active site of the enzyme. CONCLUSIONS: The crystal structure of the DFPase from Loligo vulgaris is the first example of a structural characterization of a squid-type DFPase and the second crystal structure of a PTE determined to date. Therefore, it may serve as a structural model for squid-type DFPases in general. The overall structure of this protein represents a six-fold beta propeller with two calcium ions bound in a central water-filled tunnel. The consensus motif found in the blades of this beta propeller has not yet been observed in other beta propeller structures. Based on the results obtained from mutants of active-site residues, a mechanistic model for the DFP hydrolysis has been developed.
 
- 
-
Crystal structure of diisopropylfluorophosphatase from Loligo vulgaris.,Scharff EI, Koepke J, Fritzsch G, Lucke C, Ruterjans H Structure. 2001 Jun;9(6):493-502. PMID:11435114<ref>PMID:11435114</ref>
 
- 
-
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 
-
</div>
 
-
<div class="pdbe-citations 1e1a" style="background-color:#fffaf0;"></div>
 
==See Also==
==See Also==
Line 34: Line 27:
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Common european squid]]
 
-
[[Category: Diisopropyl-fluorophosphatase]]
 
[[Category: Large Structures]]
[[Category: Large Structures]]
-
[[Category: Fritzsch, G]]
+
[[Category: Loligo vulgaris]]
-
[[Category: Koepke, J]]
+
[[Category: Fritzsch G]]
-
[[Category: Luecke, C]]
+
[[Category: Koepke J]]
-
[[Category: Rueterjans, H]]
+
[[Category: Luecke C]]
-
[[Category: Scharff, E I]]
+
[[Category: Rueterjans H]]
-
[[Category: Beta-propeller]]
+
[[Category: Scharff EI]]
-
[[Category: Calcium-binding site]]
+
-
[[Category: Phosphotriesterase]]
+
-
[[Category: Selenometionine]]
+

Revision as of 09:57, 20 March 2024

Crystal structure of DFPase from Loligo vulgaris

PDB ID 1e1a

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Personal tools