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| | <StructureSection load='4yny' size='340' side='right'caption='[[4yny]], [[Resolution|resolution]] 1.58Å' scene=''> | | <StructureSection load='4yny' size='340' side='right'caption='[[4yny]], [[Resolution|resolution]] 1.58Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[4yny]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YNY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YNY FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[4yny]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YNY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4YNY FirstGlance]. <br> |
| - | </td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=PCA:PYROGLUTAMIC+ACID'>PCA</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]] 1.584Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4yo0|4yo0]]</td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PCA:PYROGLUTAMIC+ACID'>PCA</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=4yny FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yny OCA], [http://pdbe.org/4yny PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4yny RCSB], [http://www.ebi.ac.uk/pdbsum/4yny PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4yny 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=4yny FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yny OCA], [https://pdbe.org/4yny PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4yny RCSB], [https://www.ebi.ac.uk/pdbsum/4yny PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4yny 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: Buffalo rat]] | |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Arimori, T]] | + | [[Category: Rattus norvegicus]] |
| - | [[Category: Fujii, Y]] | + | [[Category: Arimori T]] |
| - | [[Category: Kitago, Y]] | + | [[Category: Fujii Y]] |
| - | [[Category: Takagi, J]] | + | [[Category: Kitago Y]] |
| - | [[Category: Affinity]]
| + | [[Category: Takagi J]] |
| - | [[Category: Antibody]]
| + | |
| - | [[Category: Antibody affinity]]
| + | |
| - | [[Category: Chromatography]]
| + | |
| - | [[Category: Epitope]]
| + | |
| - | [[Category: Human podoplanin]]
| + | |
| - | [[Category: Immune system]]
| + | |
| - | [[Category: Immunoglobulin fab fragment]]
| + | |
| - | [[Category: Kinetic]]
| + | |
| - | [[Category: Monoclonal]]
| + | |
| - | [[Category: Protein]]
| + | |
| - | [[Category: Protein binding]]
| + | |
| - | [[Category: Rat]]
| + | |
| - | [[Category: Recombinant fusion protein]]
| + | |
| Structural highlights
Publication Abstract from PubMed
Placement of a tag sequence is usually limited to either terminal of the target protein, reducing the potential of epitope tags for various labeling applications. The PA tag is a dodecapeptide (GVAMPGAEDDVV) that is recognized by a high-affinity antibody NZ-1. We determined the crystal structure of the PA tag/NZ-1 complex and found that NZ-1 recognized a central segment of the PA tag peptide in a tight beta-turn configuration, suggesting its compatibility with the insertion into a loop. This possibility was tested and confirmed using multiple integrin subunits and semaphorin. More specifically, the PA tag can be inserted at multiple locations within the alphaIIb subunit of the fibrinogen receptor alphaIIbbeta3 integrin without affecting the structural and functional integrity, while maintaining its high affinity toward NZ-1. The large choice of the sites for "epitope grafting" enabled the placement of the PA tag at a location whose accessibility is modulated during the biological action of the receptor. Thus, we succeeded in converting a general anti-tag antibody into a special reporter/activator anti-beta1 integrin antibody that can be classified as a ligand-induced binding site antibody.
Tailored placement of a turn-forming PA tag into the structured domain of a protein to probe its conformational state.,Fujii Y, Matsunaga Y, Arimori T, Kitago Y, Ogasawara S, Kaneko MK, Kato Y, Takagi J J Cell Sci. 2016 Feb 12. pii: jcs.176685. PMID:26872787[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Fujii Y, Matsunaga Y, Arimori T, Kitago Y, Ogasawara S, Kaneko MK, Kato Y, Takagi J. Tailored placement of a turn-forming PA tag into the structured domain of a protein to probe its conformational state. J Cell Sci. 2016 Feb 12. pii: jcs.176685. PMID:26872787 doi:http://dx.doi.org/10.1242/jcs.176685
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