1joj: Difference between revisions

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-[[Image:1joj.gif|left|200px]]<br /><applet load="1joj" size="450" color="white" frame="true" align="right" spinBox="true"
-caption="1joj, resolution 3.00&Aring;" />
-'''CONCANAVALIN A-HEXAPEPTIDE COMPLEX'''<br />
-==Overview==
+==CONCANAVALIN A-HEXAPEPTIDE COMPLEX==
-The structural basis of affinity enhancement was addressed by analyzing, the interactions between concanavalin A and the carbohydrate-mimicking, peptide ligands. Based on the crystal structures of concanavalin A in, complex with these peptides [Jain, D., Kaur, K. J., Sundaravadivel, B., and Salunke, D. M. (2000) J. Biol. Chem. 275, 16098-16102; Jain, D., Kaur, K. J., and Salunke, D. M. (2001) Biophys. J. 80, 2912-2921], a, high-affinity analogue was designed. This analogue (acetyl-MYWYPY-amide), binds to the lectin with 32-fold enhanced affinity compared to the, corresponding precursor peptides. The crystal structure of concanavalin A, bound to the designed peptide has been determined. A peptide molecule, binds to each of the crystallographically independent monomers of the, tetrameric lectin. The four bound peptide molecules exhibit two major, conformations both of which are extended. Unlike in the case of other, concanavalin A binding peptides, the structural variations within, different conformers of this analogue are marginal. It is apparent that, the deletion of the structurally variable region of the larger peptides, has led to an improved complementarity and increased buried surface area, in the case of the designed peptide. The crystal structure also showed the, formation of two backbone hydrogen bonds between the ligand and the ligate, which were not present in the complexes of the precursor peptides. The, observed structural features adequately explain the enhanced binding of, the designed analogue.
+<StructureSection load='1joj' size='340' side='right'caption='[[1joj]], [[Resolution|resolution]] 3.00&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1joj]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Canavalia_ensiformis Canavalia ensiformis] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JOJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1JOJ FirstGlance]. <br>
+</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&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</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=1joj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1joj OCA], [https://pdbe.org/1joj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1joj RCSB], [https://www.ebi.ac.uk/pdbsum/1joj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1joj ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/CONA_CANBR CONA_CANBR] Glucose/D-mannose specific lectin. Has anti-inflammatory activity in rats. Induces histamine release in mast cells from hamster and rat. Induces lymphocyte proliferation and IFNG production. Shows toxicity against the aquatic snail B.glabrata at concentrations higher than 20 ug/ml.<ref>PMID:1398779</ref> <ref>PMID:7524287</ref> <ref>PMID:8891754</ref> <ref>PMID:18472821</ref> <ref>PMID:9575151</ref> <ref>PMID:10747944</ref> <ref>PMID:19765980</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/jo/1joj_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=1joj ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The structural basis of affinity enhancement was addressed by analyzing the interactions between concanavalin A and the carbohydrate-mimicking peptide ligands. Based on the crystal structures of concanavalin A in complex with these peptides [Jain, D., Kaur, K. J., Sundaravadivel, B., and Salunke, D. M. (2000) J. Biol. Chem. 275, 16098-16102; Jain, D., Kaur, K. J., and Salunke, D. M. (2001) Biophys. J. 80, 2912-2921], a high-affinity analogue was designed. This analogue (acetyl-MYWYPY-amide) binds to the lectin with 32-fold enhanced affinity compared to the corresponding precursor peptides. The crystal structure of concanavalin A bound to the designed peptide has been determined. A peptide molecule binds to each of the crystallographically independent monomers of the tetrameric lectin. The four bound peptide molecules exhibit two major conformations both of which are extended. Unlike in the case of other concanavalin A binding peptides, the structural variations within different conformers of this analogue are marginal. It is apparent that the deletion of the structurally variable region of the larger peptides has led to an improved complementarity and increased buried surface area in the case of the designed peptide. The crystal structure also showed the formation of two backbone hydrogen bonds between the ligand and the ligate which were not present in the complexes of the precursor peptides. The observed structural features adequately explain the enhanced binding of the designed analogue.
-==About this Structure==
+Enhanced binding of a rationally designed peptide ligand of concanavalin a arises from improved geometrical complementarity.,Jain D, Kaur KJ, Salunke DM Biochemistry. 2001 Oct 9;40(40):12059-66. PMID:11580281<ref>PMID:11580281</ref>
-JOJ is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Canavalia_ensiformis Canavalia ensiformis] with MN, CA, ACE and NH2 as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1JOJ OCA].
-==Reference==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-Enhanced binding of a rationally designed peptide ligand of concanavalin a arises from improved geometrical complementarity., Jain D, Kaur KJ, Salunke DM, Biochemistry. 2001 Oct 9;40(40):12059-66. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11580281 11580281]
+</div>
+<div class="pdbe-citations 1joj" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Concanavalin 3D structures|Concanavalin 3D structures]]
+== References ==
+<references/>
+__TOC__
+</StructureSection>
 [[Category: Canavalia ensiformis]]
-[[Category: Single protein]]
+[[Category: Large Structures]]
-[[Category: Jain, D.]]
+[[Category: Synthetic construct]]
-[[Category: Kaur, K.]]
+[[Category: Jain D]]
-[[Category: Salunke, D.M.]]
+[[Category: Kaur K]]
-[[Category: ACE]]
+[[Category: Salunke DM]]
-[[Category: CA]]
-[[Category: MN]]
-[[Category: NH2]]
-[[Category: lectin]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 18:25:38 2007''