2jgs: Difference between revisions

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[[Image:~~2jgs~~.~~png~~|~~left~~|~~200px~~]]

==CIRCULAR PERMUTANT OF AVIDIN==

== Structural highlights ==

<table><tr><td colspan='2'>[[2jgs]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JGS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2JGS FirstGlance]. <br>

</td></tr><tr><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BTN:BIOTIN'>BTN</scene><br>

<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2jgs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jgs OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2jgs RCSB], [http://www.ebi.ac.uk/pdbsum/2jgs PDBsum]</span></td></tr>

<table>

== Evolutionary Conservation ==

[[Image:Consurf_key_small.gif|200px|right]]

Check<jmol>

<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/jg/2jgs_consurf.spt"</scriptWhenChecked>

<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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/chain_selection.php?pdb_ID=2ata ConSurf].

== Publication Abstract from PubMed ==

Chicken avidin is a key component used in a wide variety of biotechnological applications. Here we present a circularly permuted avidin (cpAvd4-->3) that lacks the loop between beta-strands 3 and 4. Importantly, the deletion of the loop has a positive effect on the binding of 4'-hydroxyazobenzene-2-carboxylic acid (HABA) to avidin. To increase the HABA affinity of cpAvd4-->3 even further, we mutated asparagine 118 on the bottom of the ligand-binding pocket to methionine, which simultaneously caused a significant drop in biotin-binding affinity. The X-ray structure of cpAvd4--> 3(N118M) allows an understanding of the effect of mutation to biotin-binding, whereas isothermal titration calorimetry revealed that the relative binding affinity of biotin and HABA had changed by over one billion-fold between wild-type avidin and cpAvd4-->3(N118M). To demonstrate the versatility of the cpAvd4-->3 construct, we have shown that it is possible to link cpAvd4-->3 and cpAvd5-->4 to form the dual-chain avidin called dcAvd2. These novel avidins might serve as a basis for the further development of self-organising nanoscale avidin building blocks.

~~{{STRUCTURE_2jgs| PDB=2jgs | SCENE= }}~~

Rational modification of ligand-binding preference of avidin by circular permutation and mutagenesis.,Maatta JA, Airenne TT, Nordlund HR, Janis J, Paldanius TA, Vainiotalo P, Johnson MS, Kulomaa MS, Hytonen VP Chembiochem. 2008 May 5;9(7):1124-35. PMID:18381715<ref>PMID:18381715</ref>

~~===CIRCULAR PERMUTANT OF AVIDIN===~~

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>

</div>

~~{{ABSTRACT_PUBMED_18381715}}~~

~~==About this Structure==~~

~~[[2jgs]] is~~ a ~~4 chain structure with sequence from [http://en.wikipedia~~.~~org/wiki/Gallus_gallus Gallus gallus]~~. ~~Full crystallographic information is available from [http://oca~~.~~weizmann.ac.il/oca-bin~~/~~ocashort?id=2JGS OCA].~~

==See Also==

*[[Avidin|Avidin]]

== References ==

==~~Reference~~==

<~~ref group="xtra">PMID:018381715<~~/~~ref~~><~~references group="xtra"~~/>

__TOC__

</StructureSection>

[[Category: Gallus gallus]]

[[Category: Airenne, T T.]]

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-[[Image:2jgs.png|left|200px]]
+==CIRCULAR PERMUTANT OF AVIDIN==
+<StructureSection load='2jgs' size='340' side='right' caption='[[2jgs]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[2jgs]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JGS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2JGS FirstGlance]. <br>
+</td></tr><tr><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BTN:BIOTIN'>BTN</scene><br>
+<tr><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1avd|1avd]], [[1ave|1ave]], [[1ij8|1ij8]], [[1ldo|1ldo]], [[1ldq|1ldq]], [[1lel|1lel]], [[1nqn|1nqn]], [[1rav|1rav]], [[1vyo|1vyo]], [[2a5b|2a5b]], [[2a5c|2a5c]], [[2a8g|2a8g]], [[2avi|2avi]], [[2c4i|2c4i]], [[2cam|2cam]]</td></tr>
+<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2jgs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jgs OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2jgs RCSB], [http://www.ebi.ac.uk/pdbsum/2jgs PDBsum]</span></td></tr>
+<table>
+== 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/jg/2jgs_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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/chain_selection.php?pdb_ID=2ata ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Chicken avidin is a key component used in a wide variety of biotechnological applications. Here we present a circularly permuted avidin (cpAvd4--&gt;3) that lacks the loop between beta-strands 3 and 4. Importantly, the deletion of the loop has a positive effect on the binding of 4'-hydroxyazobenzene-2-carboxylic acid (HABA) to avidin. To increase the HABA affinity of cpAvd4--&gt;3 even further, we mutated asparagine 118 on the bottom of the ligand-binding pocket to methionine, which simultaneously caused a significant drop in biotin-binding affinity. The X-ray structure of cpAvd4--&gt; 3(N118M) allows an understanding of the effect of mutation to biotin-binding, whereas isothermal titration calorimetry revealed that the relative binding affinity of biotin and HABA had changed by over one billion-fold between wild-type avidin and cpAvd4--&gt;3(N118M). To demonstrate the versatility of the cpAvd4--&gt;3 construct, we have shown that it is possible to link cpAvd4--&gt;3 and cpAvd5--&gt;4 to form the dual-chain avidin called dcAvd2. These novel avidins might serve as a basis for the further development of self-organising nanoscale avidin building blocks.
-{{STRUCTURE_2jgs|  PDB=2jgs  |  SCENE=  }}
+Rational modification of ligand-binding preference of avidin by circular permutation and mutagenesis.,Maatta JA, Airenne TT, Nordlund HR, Janis J, Paldanius TA, Vainiotalo P, Johnson MS, Kulomaa MS, Hytonen VP Chembiochem. 2008 May 5;9(7):1124-35. PMID:18381715<ref>PMID:18381715</ref>
-===CIRCULAR PERMUTANT OF AVIDIN===
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
-{{ABSTRACT_PUBMED_18381715}}
-==About this Structure==
-[[2jgs]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JGS OCA].
 ==See Also==
 *[[Avidin|Avidin]]
+== References ==
-==Reference==
+<references/>
-<ref group="xtra">PMID:018381715</ref><references group="xtra"/>
+__TOC__
+</StructureSection>
 [[Category: Gallus gallus]]
 [[Category: Airenne, T T.]]