2kdl: Difference between revisions

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{{Seed}}
[[Image:2kdl.png|left|200px]]


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==NMR structures of GA95 and GB95, two designed proteins with 95% sequence identity but different folds and functions==
The line below this paragraph, containing "STRUCTURE_2kdl", creates the "Structure Box" on the page.
<StructureSection load='2kdl' size='340' side='right'caption='[[2kdl]]' 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'>[[2kdl]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KDL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2KDL 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">Solution NMR</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2kdl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kdl OCA], [https://pdbe.org/2kdl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2kdl RCSB], [https://www.ebi.ac.uk/pdbsum/2kdl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2kdl ProSAT]</span></td></tr>
{{STRUCTURE_2kdl|  PDB=2kdl  |  SCENE=  }}
</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/kd/2kdl_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/main_output.php?pdb_ID=2kdl ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
We present here a structural and mechanistic description of how a protein changes its fold and function, mutation by mutation. Our approach was to create 2 proteins that (i) are stably folded into 2 different folds, (ii) have 2 different functions, and (iii) are very similar in sequence. In this simplified sequence space we explore the mutational path from one fold to another. We show that an IgG-binding, 4beta+alpha fold can be transformed into an albumin-binding, 3-alpha fold via a mutational pathway in which neither function nor native structure is completely lost. The stabilities of all mutants along the pathway are evaluated, key high-resolution structures are determined by NMR, and an explanation of the switching mechanism is provided. We show that the conformational switch from 4beta+alpha to 3-alpha structure can occur via a single amino acid substitution. On one side of the switch point, the 4beta+alpha fold is &gt;90% populated (pH 7.2, 20 degrees C). A single mutation switches the conformation to the 3-alpha fold, which is &gt;90% populated (pH 7.2, 20 degrees C). We further show that a bifunctional protein exists at the switch point with affinity for both IgG and albumin.


===NMR structures of GA95 and GB95, two designed proteins with 95% sequence identity but different folds and functions===
A minimal sequence code for switching protein structure and function.,Alexander PA, He Y, Chen Y, Orban J, Bryan PN Proc Natl Acad Sci U S A. 2009 Dec 15;106(50):21149-54. Epub 2009 Nov 18. PMID:19923431<ref>PMID:19923431</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
The line below this paragraph, {{ABSTRACT_PUBMED_19923431}}, adds the Publication Abstract to the page
<div class="pdbe-citations 2kdl" style="background-color:#fffaf0;"></div>
(as it appears on PubMed at http://www.pubmed.gov), where 19923431 is the PubMed ID number.
== References ==
-->
<references/>
{{ABSTRACT_PUBMED_19923431}}
__TOC__
 
</StructureSection>
==About this Structure==
[[Category: Large Structures]]
2KDL is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KDL OCA].
[[Category: Alexander P]]
 
[[Category: Bryan P]]
==Reference==
[[Category: Chen Y]]
<ref group="xtra">PMID:19923431</ref><references group="xtra"/>
[[Category: He Y]]
[[Category: Alexander, P.]]
[[Category: Orban J]]
[[Category: Bryan, P.]]
[[Category: Chen, Y.]]
[[Category: He, Y.]]
[[Category: Orban, J.]]
[[Category: Evolution]]
[[Category: Folding]]
[[Category: Protein design]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 20 16:15:31 2010''

Latest revision as of 09:37, 22 May 2024

NMR structures of GA95 and GB95, two designed proteins with 95% sequence identity but different folds and functions

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