2p09: Difference between revisions

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==Structural Insights into the Evolution of a Non-Biological Protein==
==Structural Insights into the Evolution of a Non-Biological Protein==
<StructureSection load='2p09' size='340' side='right' caption='[[2p09]], [[Resolution|resolution]] 1.65&Aring;' scene=''>
<StructureSection load='2p09' size='340' side='right'caption='[[2p09]], [[Resolution|resolution]] 1.65&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[2p09]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Miscellaneous_nucleic_acid Miscellaneous nucleic acid]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P09 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2P09 FirstGlance]. <br>
<table><tr><td colspan='2'>[[2p09]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Unidentified Unidentified]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P09 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2P09 FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.65&#8491;</td></tr>
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2p05|2p05]]</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2p09 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p09 OCA], [http://pdbe.org/2p09 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2p09 RCSB], [http://www.ebi.ac.uk/pdbsum/2p09 PDBsum]</span></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=2p09 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p09 OCA], [https://pdbe.org/2p09 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2p09 RCSB], [https://www.ebi.ac.uk/pdbsum/2p09 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2p09 ProSAT]</span></td></tr>
</table>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Phylogenetic profiling of amino acid substitution patterns in proteins has led many to conclude that most structural information is carried by interior core residues that are solvent inaccessible. This conclusion is based on the observation that buried residues generally tolerate only conserved sequence changes, while surface residues allow more diverse chemical substitutions. This notion is now changing as it has become apparent that both core and surface residues play important roles in protein folding and stability. Unfortunately, the ability to identify specific mutations that will lead to enhanced stability remains a challenging problem. Here we discuss two mutations that emerged from an in vitro selection experiment designed to improve the folding stability of a non-biological ATP binding protein. These mutations alter two solvent accessible residues, and dramatically enhance the expression, solubility, thermal stability, and ligand binding affinity of the protein. The significance of both mutations was investigated individually and together, and the X-ray crystal structures of the parent sequence and double mutant protein were solved to a resolution limit of 2.8 and 1.65 A, respectively. Comparative structural analysis of the evolved protein to proteins found in nature reveals that our non-biological protein evolved certain structural features shared by many thermophilic proteins. This experimental result suggests that protein fold optimization by in vitro selection offers a viable approach to generating stable variants of many naturally occurring proteins whose structures and functions are otherwise difficult to study.
Structural insights into the evolution of a non-biological protein: importance of surface residues in protein fold optimization.,Smith MD, Rosenow MA, Wang M, Allen JP, Szostak JW, Chaput JC PLoS ONE. 2007 May 23;2(5):e467. PMID:17520026<ref>PMID:17520026</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 2p09" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Miscellaneous nucleic acid]]
[[Category: Large Structures]]
[[Category: Allen, J P]]
[[Category: Unidentified]]
[[Category: Chaput, J C]]
[[Category: Allen JP]]
[[Category: Rosenow, M]]
[[Category: Chaput JC]]
[[Category: Smith, M]]
[[Category: Rosenow M]]
[[Category: Szostak, J W]]
[[Category: Smith M]]
[[Category: Wang, M]]
[[Category: Szostak JW]]
[[Category: Alpha/beta fold]]
[[Category: Wang M]]
[[Category: De novo protein]]

Latest revision as of 12:07, 21 February 2024

Structural Insights into the Evolution of a Non-Biological ProteinStructural Insights into the Evolution of a Non-Biological Protein

Structural highlights

2p09 is a 1 chain structure with sequence from Unidentified. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.65Å
Ligands:, , ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

2p09, resolution 1.65Å

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