|
|
| Line 3: |
Line 3: |
| | <StructureSection load='4k5c' size='340' side='right'caption='[[4k5c]], [[Resolution|resolution]] 1.70Å' scene=''> | | <StructureSection load='4k5c' size='340' side='right'caption='[[4k5c]], [[Resolution|resolution]] 1.70Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[4k5c]] is a 2 chain structure with sequence from [http://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=4K5C OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4K5C FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[4k5c]] is a 2 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=4K5C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4K5C FirstGlance]. <br> |
| - | </td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4k5a|4k5a]], [[4k5b|4k5b]]</td></tr> | + | </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=4k5c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4k5c OCA], [https://pdbe.org/4k5c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4k5c RCSB], [https://www.ebi.ac.uk/pdbsum/4k5c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4k5c ProSAT]</span></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=4k5c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4k5c OCA], [http://pdbe.org/4k5c PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4k5c RCSB], [http://www.ebi.ac.uk/pdbsum/4k5c PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4k5c ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| Line 20: |
Line 19: |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Bacillus coli migula 1895]] | + | [[Category: Escherichia coli]] |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Plueckthun, A]] | + | [[Category: Plueckthun A]] |
| - | [[Category: Schilling, J]] | + | [[Category: Schilling J]] |
| - | [[Category: Schoeppe, J]] | + | [[Category: Schoeppe J]] |
| - | [[Category: Structural protein]]
| + | |
| Structural highlights
Publication Abstract from PubMed
Antibodies are the most versatile binding proteins in nature with six loops creating a flexible continuous interaction surface. However, in some molecular formats, antibodies are aggregation prone. Designed ankyrin repeat proteins (DARPins) were successfully created as alternative design solutions. Nevertheless, their concave shape, rigidity and incompletely randomized binding surface may limit the epitopes that can be targeted by this extremely stable scaffold. Combining conformational diversity and a continuous convex paratope found in many antibodies with the beneficial biophysical properties of DARPins, we created LoopDARPins, a next generation of DARPins with extended epitope binding properties. We employed X-ray structure determination of a LoopDARPin for design validation. Biophysical characterizations show that the introduction of an elongated loop through consensus design does not decrease the stability of the scaffold,consistent with molecular dynamics simulations. Ribosome-display selections against extracellular signal-regulated kinase 2 (ERK2) and four members of the BCL-2 family (BCL-2, BCL-XL, BCL-W and MCL-1) of anti-apoptotic regulators yielded LoopDARPins with affinities in the mid-picomolar to low nanomol arrange against all targets. The BCL-2 family binders block the interaction with their natural interaction partner and will be valuable reagents to test the apoptotic response in functional assays. With the LoopDARPin scaffold, binders for BCL-2 with an affinity of 30 pM were isolated with only a single round of ribosome display,an enrichment that has not been described for any scaffold. Identical stringent one-round selections with conventional DARPins without loop yielded no binders. The LoopDARPin scaffold may become a highly valuable tool for biotechnological high-throughput applications.
From DARPins to LoopDARPins: novel LoopDARPin design allows the selection of low picomolar binders in a single round of ribosome display.,Schilling J, Schoppe J, Pluckthun A J Mol Biol. 2014 Feb 6;426(3):691-721. PMID:24513107[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Schilling J, Schoppe J, Pluckthun A. From DARPins to LoopDARPins: novel LoopDARPin design allows the selection of low picomolar binders in a single round of ribosome display. J Mol Biol. 2014 Feb 6;426(3):691-721. PMID:24513107 doi:http://dx.doi.org/10.1016/j.jmb.2013.10.026
|
