3vb8: Difference between revisions
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==Crystal Structure of Engineered Protein, Northeast Structural Genomics Consortium Target OR43== | ==Crystal Structure of Engineered Protein, Northeast Structural Genomics Consortium Target OR43== | ||
<StructureSection load='3vb8' size='340' side='right' caption='[[3vb8]], [[Resolution|resolution]] 2.90Å' scene=''> | <StructureSection load='3vb8' size='340' side='right'caption='[[3vb8]], [[Resolution|resolution]] 2.90Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[3vb8]] is a 2 chain structure with sequence from [ | <table><tr><td colspan='2'>[[3vb8]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct_sequences Synthetic construct sequences]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VB8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VB8 FirstGlance]. <br> | ||
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr> | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr> | ||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3vb8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vb8 OCA], [https://pdbe.org/3vb8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vb8 RCSB], [https://www.ebi.ac.uk/pdbsum/3vb8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vb8 ProSAT]</span></td></tr> | ||
</table> | </table> | ||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
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__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Large Structures]] | |||
[[Category: Synthetic construct sequences]] | [[Category: Synthetic construct sequences]] | ||
[[Category: Acton, T B]] | [[Category: Acton, T B]] | ||
Revision as of 21:36, 27 July 2022
Crystal Structure of Engineered Protein, Northeast Structural Genomics Consortium Target OR43Crystal Structure of Engineered Protein, Northeast Structural Genomics Consortium Target OR43
Structural highlights
Publication Abstract from PubMedWhile there has been considerable progress in designing protein-protein interactions, the design of proteins that bind polar surfaces is an unmet challenge. We describe the computational design of a protein that binds the acidic active site of hen egg lysozyme and inhibits the enzyme. The design process starts with two polar amino acids that fit deep into the enzyme active site, identifies a protein scaffold that supports these residues and is complementary in shape to the lysozyme active-site region, and finally optimizes the surrounding contact surface for high-affinity binding. Following affinity maturation, a protein designed using this method bound lysozyme with low nanomolar affinity, and a combination of NMR studies, crystallography, and knockout mutagenesis confirmed the designed binding surface and orientation. Saturation mutagenesis with selection and deep sequencing demonstrated that specific designed interactions extending well beyond the centrally grafted polar residues are critical for high-affinity binding. Computational Design of a Protein-Based Enzyme Inhibitor.,Procko E, Hedman R, Hamilton K, Seetharaman J, Fleishman SJ, Su M, Aramini J, Kornhaber G, Hunt JF, Tong L, Montelione GT, Baker D J Mol Biol. 2013 Jul 1. pii: S0022-2836(13)00430-0. doi:, 10.1016/j.jmb.2013.06.035. PMID:23827138[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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