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| <StructureSection load='3qa9' size='340' side='right'caption='[[3qa9]], [[Resolution|resolution]] 1.90Å' scene=''> | | <StructureSection load='3qa9' size='340' side='right'caption='[[3qa9]], [[Resolution|resolution]] 1.90Å' scene=''> |
| == Structural highlights == | | == Structural highlights == |
| <table><tr><td colspan='2'>[[3qa9]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QA9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3QA9 FirstGlance]. <br> | | <table><tr><td colspan='2'>[[3qa9]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QA9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3QA9 FirstGlance]. <br> |
| </td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3q9u|3q9u]], [[3q9n|3q9n]]</div></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]] 1.9Å</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=3qa9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qa9 OCA], [https://pdbe.org/3qa9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3qa9 RCSB], [https://www.ebi.ac.uk/pdbsum/3qa9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3qa9 ProSAT]</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=3qa9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qa9 OCA], [https://pdbe.org/3qa9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3qa9 RCSB], [https://www.ebi.ac.uk/pdbsum/3qa9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3qa9 ProSAT]</span></td></tr> |
| </table> | | </table> |
| <div style="background-color:#fffaf0;">
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| == Publication Abstract from PubMed ==
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| The de novo design of protein-protein interfaces is a stringent test of our understanding of the principles underlying protein-protein interactions and would enable unique approaches to biological and medical challenges. Here we describe a motif-based method to computationally design protein-protein complexes with native-like interface composition and interaction density. Using this method we designed a pair of proteins, Prb and Pdar, that heterodimerize with a Kd of 130 nM, 1000-fold tighter than any previously designed de novo protein-protein complex. Directed evolution identified two point mutations that improve affinity to 180 pM. Crystal structures of an affinity-matured complex reveal binding is entirely through the designed interface residues. Surprisingly, in the in vitro evolved complex one of the partners is rotated 180 degrees relative to the original design model, yet still maintains the central computationally designed hotspot interaction and preserves the character of many peripheral interactions. This work demonstrates that high-affinity protein interfaces can be created by designing complementary interaction surfaces on two noninteracting partners and underscores remaining challenges.
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| A De Novo Protein Binding Pair By Computational Design and Directed Evolution.,Karanicolas J, Corn JE, Chen I, Joachimiak LA, Dym O, Peck SH, Albeck S, Unger T, Hu W, Liu G, Delbecq S, T Montelione G, P Spiegel C, Liu DR, Baker D Mol Cell. 2011 Apr 22;42(2):250-260. Epub 2011 Mar 31. PMID:21458342<ref>PMID:21458342</ref>
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| From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
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| </div>
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| <div class="pdbe-citations 3qa9" style="background-color:#fffaf0;"></div>
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| == References ==
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| <references/>
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| __TOC__ | | __TOC__ |
| </StructureSection> | | </StructureSection> |
| [[Category: Bacillus coli migula 1895]] | | [[Category: Escherichia coli]] |
| [[Category: Large Structures]] | | [[Category: Large Structures]] |
| [[Category: Spiegel, P C]] | | [[Category: Spiegel PC]] |
| [[Category: Coa binding motif]]
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| [[Category: De novo protein]]
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| [[Category: Engineered binding partner for pdar]]
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| [[Category: Pdar]]
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| [[Category: Prb monomer]]
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| [[Category: Protein binding]]
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