2ldj: Difference between revisions

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[[Image:2ldj.png|left|200px]]


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==1H Chemical Shift Assignments and structure of Trp-Cage mini-protein with D-amino acid==
The line below this paragraph, containing "STRUCTURE_2ldj", creates the "Structure Box" on the page.
<StructureSection load='2ldj' size='340' side='right'caption='[[2ldj]]' 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'>[[2ldj]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LDJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2LDJ 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, 1 model</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DGN:D-GLUTAMINE'>DGN</scene></td></tr>
{{STRUCTURE_2ldj|  PDB=2ldj  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2ldj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ldj OCA], [https://pdbe.org/2ldj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ldj RCSB], [https://www.ebi.ac.uk/pdbsum/2ldj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ldj ProSAT]</span></td></tr>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Judicious incorporation of d-amino acids in engineered proteins confers many advantages such as preventing degradation by endogenous proteases and promoting novel structures and functions not accessible to homochiral polypeptides. Glycine to d-alanine substitutions at the carboxy termini can stabilize alpha-helices by reducing conformational entropy. Beyond alanine, we propose additional side chain effects on the degree of stabilization conferred by d-amino acid substitutions. A detailed, molecular understanding of backbone and side chain interactions is important for developing rational, broadly applicable strategies in using d-amino acids to increase protein thermostability. Insight from structural bioinformatics combined with computational protein design can successfully guide the selection of stabilizing d-amino acid mutations. Substituting a key glycine in the Trp-cage miniprotein with d-Gln dramatically stabilizes the fold without altering the protein backbone. Stabilities of individual substitutions can be understood in terms of the balance of intramolecular forces both at the alpha-helix C-terminus and throughout the protein.


===1H Chemical Shift Assignments and structure of Trp-Cage mini-protein with D-amino acid===
Computational Design of Thermostabilizing d-Amino Acid Substitutions.,Rodriguez-Granillo A, Annavarapu S, Zhang L, Koder RL, Nanda V J Am Chem Soc. 2011 Nov 23;133(46):18750-9. Epub 2011 Oct 27. PMID:21978298<ref>PMID:21978298</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_21978298}}, adds the Publication Abstract to the page
<div class="pdbe-citations 2ldj" style="background-color:#fffaf0;"></div>
(as it appears on PubMed at http://www.pubmed.gov), where 21978298 is the PubMed ID number.
== References ==
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<references/>
{{ABSTRACT_PUBMED_21978298}}
__TOC__
 
</StructureSection>
==About this Structure==
[[Category: Large Structures]]
[[2ldj]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LDJ OCA].
[[Category: Annavarapu S]]
 
[[Category: Granillo AR]]
==Reference==
[[Category: Koder R]]
<ref group="xtra">PMID:021978298</ref><references group="xtra"/>
[[Category: Nanda V]]
[[Category: Annavarapu, S.]]
[[Category: Zhang L]]
[[Category: Granillo, A R.]]
[[Category: Koder, R.]]
[[Category: Nanda, V.]]
[[Category: Zhang, L.]]
[[Category: Computational protein design]]
[[Category: D-amino acid]]
[[Category: De novo protein]]

Latest revision as of 08:17, 30 October 2024

1H Chemical Shift Assignments and structure of Trp-Cage mini-protein with D-amino acid

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