1r4z

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (07:17, 30 October 2024) (edit) (undo)
 
(10 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1r4z.png|left|200px]]
 
-
<!--
+
==Bacillus subtilis lipase A with covalently bound Rc-IPG-phosphonate-inhibitor==
-
The line below this paragraph, containing "STRUCTURE_1r4z", creates the "Structure Box" on the page.
+
<StructureSection load='1r4z' size='340' side='right'caption='[[1r4z]], [[Resolution|resolution]] 1.80&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'>[[1r4z]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1R4Z OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1R4Z 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]] 1.8&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=RIL:[(4R)-2,2-DIMETHYL-1,3-DIOXOLAN-4-YL]METHYL+HYDROGEN+HEX-5-ENYLPHOSPHONATE'>RIL</scene></td></tr>
-
{{STRUCTURE_1r4z| PDB=1r4z | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1r4z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1r4z OCA], [https://pdbe.org/1r4z PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1r4z RCSB], [https://www.ebi.ac.uk/pdbsum/1r4z PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1r4z ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/ESTA_BACSU ESTA_BACSU] Active toward p-nitrophenyl esters and triacylglycerides with a marked preference for esters with C8 acyl groups.<ref>PMID:8396026</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/r4/1r4z_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=1r4z ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Phage display can be used as a protein-engineering tool for the selection of proteins with desirable binding properties from a library of mutants. Here we describe the application of this method for the directed evolution of Bacillus subtilis lipase A, an enzyme that has important properties for the preparation of the pharmaceutically relevant chiral compound 1,2-O-isopropylidene-sn-glycerol (IPG). PCR mutagenesis with spiked oligonucleotides was employed for saturation mutagenesis of a stretch of amino acids near the active site. After expression of these mutants on bacteriophages, dual selection with (S)-(+)- and (R)-(-)-IPG stereoisomers covalently coupled to enantiomeric phosphonate suicide inhibitors (SIRAN Sc and Rc inhibitors, respectively) was used for the isolation of variants with inverted enantioselectivity. The mutants were further characterised by determination of their Michaelis-Menten parameters. The 3D structures of the Sc and Rc inhibitor-lipase complexes were determined and provided structural insight into the mechanism of enantioselectivity of the enzyme. In conclusion, we have used phage display as a fast and reproducible method for the selection of Bacillus lipase A mutant enzymes with inverted enantioselectivity.
-
===Bacillus subtilis lipase A with covalently bound Rc-IPG-phosphonate-inhibitor===
+
Directed evolution of Bacillus subtilis lipase A by use of enantiomeric phosphonate inhibitors: crystal structures and phage display selection.,Droge MJ, Boersma YL, van Pouderoyen G, Vrenken TE, Ruggeberg CJ, Reetz MT, Dijkstra BW, Quax WJ Chembiochem. 2006 Jan;7(1):149-57. PMID:16342303<ref>PMID:16342303</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_16342303}}, adds the Publication Abstract to the page
+
<div class="pdbe-citations 1r4z" style="background-color:#fffaf0;"></div>
-
(as it appears on PubMed at http://www.pubmed.gov), where 16342303 is the PubMed ID number.
+
-
-->
+
-
{{ABSTRACT_PUBMED_16342303}}
+
-
 
+
-
==About this Structure==
+
-
[[1r4z]] is a 2 chain structure of [[Lipase]] with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1R4Z OCA].
+
==See Also==
==See Also==
-
*[[Lipase]]
+
*[[Lipase 3D Structures|Lipase 3D Structures]]
-
 
+
== References ==
-
==Reference==
+
<references/>
-
<ref group="xtra">PMID:16342303</ref><references group="xtra"/>
+
__TOC__
 +
</StructureSection>
[[Category: Bacillus subtilis]]
[[Category: Bacillus subtilis]]
-
[[Category: Triacylglycerol lipase]]
+
[[Category: Large Structures]]
-
[[Category: Dijkstra, B W.]]
+
[[Category: Dijkstra BW]]
-
[[Category: Droege, M J.]]
+
[[Category: Droege MJ]]
-
[[Category: Pouderoyen, G Van.]]
+
[[Category: Quax WJ]]
-
[[Category: Quax, W J.]]
+
[[Category: Reetz MT]]
-
[[Category: Reetz, M T.]]
+
[[Category: Rueggeberg CJ]]
-
[[Category: Rueggeberg, C J.]]
+
[[Category: Van Pouderoyen G]]
-
[[Category: Vrenken, T E.]]
+
[[Category: Vrenken TE]]
-
[[Category: Alpha/beta hydrolase]]
+
-
[[Category: Lipase]]
+
-
[[Category: Phosphonate inhibitor]]
+

Current revision

Bacillus subtilis lipase A with covalently bound Rc-IPG-phosphonate-inhibitor

PDB ID 1r4z

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/1r4z"
Personal tools