2y57: Difference between revisions

From Proteopedia
Jump to navigationJump to search
← Older edit
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,331,613 edits
No edit summary
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,331,613 edits
No edit summary
 
(8 intermediate revisions by the same user not shown)
Line 1: Line 1:
[[Image:2y57.jpg|left|200px]]


<!--
==Fragment growing induces conformational changes in acetylcholine- binding protein: A structural and thermodynamic analysis - (Compound 4)==
The line below this paragraph, containing "STRUCTURE_2y57", creates the "Structure Box" on the page.
<StructureSection load='2y57' size='340' side='right'caption='[[2y57]], [[Resolution|resolution]] 3.30&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'>[[2y57]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Aplysia_californica Aplysia californica]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y57 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2Y57 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]] 3.3&#8491;</td></tr>
-->
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=V37:[(1R,5S)-8-PHENETHYL-8-AZABICYCLO[3.2.1]OCTAN-3-YL]+BENZOATE'>V37</scene></td></tr>
{{STRUCTURE_2y57|  PDB=2y57  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2y57 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y57 OCA], [https://pdbe.org/2y57 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2y57 RCSB], [https://www.ebi.ac.uk/pdbsum/2y57 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2y57 ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/Q8WSF8_APLCA Q8WSF8_APLCA]
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Optimization of fragment hits toward high-affinity lead compounds is a crucial aspect of fragment-based drug discovery (FBDD). In the current study, we have successfully optimized a fragment by growing into a ligand-inducible subpocket of the binding site of acetylcholine-binding protein (AChBP). This protein is a soluble homologue of the ligand binding domain (LBD) of Cys-loop receptors. The fragment optimization was monitored with X-ray structures of ligand complexes and systematic thermodynamic analyses using surface plasmon resonance (SPR) biosensor analysis and isothermal titration calorimetry (ITC). Using site-directed mutagenesis and AChBP from different species, we find that specific changes in thermodynamic binding profiles, are indicative of interactions with the ligand-inducible subpocket of AChBP. This study illustrates that thermodynamic analysis provides valuable information on ligand binding modes and is complementary to affinity data when guiding rational structure- and fragment-based discovery approaches.


===FRAGMENT GROWING INDUCES CONFORMATIONAL CHANGES IN ACETYLCHOLINE-BINDING PROTEIN: A STRUCTURAL AND THERMODYNAMIC ANALYSIS - (COMPOUND 4)===
Fragment growing induces conformational changes in acetylcholine-binding protein: a structural and thermodynamic analysis.,Edink E, Rucktooa P, Retra K, Akdemir A, Nahar T, Zuiderveld O, van Elk R, Janssen E, van Nierop P, van Muijlwijk-Koezen J, Smit AB, Sixma TK, Leurs R, de Esch IJ J Am Chem Soc. 2011 Apr 13;133(14):5363-71. Epub 2011 Feb 15. PMID:21322593<ref>PMID:21322593</ref>


From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 2y57" style="background-color:#fffaf0;"></div>


<!--
==See Also==
The line below this paragraph, {{ABSTRACT_PUBMED_21322593}}, adds the Publication Abstract to the page
*[[Acetylcholine binding protein 3D structures|Acetylcholine binding protein 3D structures]]
(as it appears on PubMed at http://www.pubmed.gov), where 21322593 is the PubMed ID number.
== References ==
-->
<references/>
{{ABSTRACT_PUBMED_21322593}}
__TOC__
 
</StructureSection>
==About this Structure==
[[2y57]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Aplysia_californica Aplysia californica]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y57 OCA].
 
==Reference==
<ref group="xtra">PMID:021322593</ref><references group="xtra"/>
[[Category: Aplysia californica]]
[[Category: Aplysia californica]]
[[Category: Deesch, I J.P.]]
[[Category: Large Structures]]
[[Category: Edink, E.]]
[[Category: Edink E]]
[[Category: Rucktooa, P.]]
[[Category: Rucktooa P]]
[[Category: Sixma, T K.]]
[[Category: Sixma TK]]
[[Category: Receptor]]
[[Category: DeEsch IJP]]
Retrieved from "https://proteopedia.org/2y57"