1p4b

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[[Image:1p4b.png|left|200px]]
 
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{{STRUCTURE_1p4b| PDB=1p4b | SCENE= }}
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==Three-Dimensional Structure Of a Single Chain Fv Fragment Complexed With The peptide GCN4(7P-14P).==
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<StructureSection load='1p4b' size='340' side='right'caption='[[1p4b]], [[Resolution|resolution]] 2.35&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1p4b]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1P4B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1P4B FirstGlance]. <br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.35&#8491;</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1p4b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1p4b OCA], [https://pdbe.org/1p4b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1p4b RCSB], [https://www.ebi.ac.uk/pdbsum/1p4b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1p4b ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/LV1A_MOUSE LV1A_MOUSE]
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/p4/1p4b_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1p4b ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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We generated a single chain Fv fragment of an antibody (scFv) with a binding affinity of about 5 pm to a short peptide by applying rigorous directed evolution. Starting from a high affinity peptide binder, originally obtained by ribosome display from a murine library, we generated libraries of mutants with error-prone PCR and DNA shuffling and applied off-rate selection by using ribosome display. Crystallographic analysis of the scFv in its antigen-bound and free state showed that only few mutations, which do not make direct contact to the antigen, lead to a 500-fold affinity improvement over its potential germ line precursor. These results suggest that the affinity optimization of very high affinity binders is achieved by modulating existing interactions via subtle changes in the framework rather than by introducing new contacts. Off-rate selection in combination with ribosome display can evolve binders to the low picomolar affinity range even for peptide targets.
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===Three-Dimensional Structure Of a Single Chain Fv Fragment Complexed With The peptide GCN4(7P-14P).===
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Directed in vitro evolution and crystallographic analysis of a peptide-binding single chain antibody fragment (scFv) with low picomolar affinity.,Zahnd C, Spinelli S, Luginbuhl B, Amstutz P, Cambillau C, Pluckthun A J Biol Chem. 2004 Apr 30;279(18):18870-7. Epub 2004 Jan 30. PMID:14754898<ref>PMID:14754898</ref>
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{{ABSTRACT_PUBMED_14754898}}
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 1p4b" style="background-color:#fffaf0;"></div>
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==About this Structure==
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==See Also==
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[[1p4b]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1P4B OCA].
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*[[Antibody 3D structures|Antibody 3D structures]]
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*[[Monoclonal Antibodies 3D structures|Monoclonal Antibodies 3D structures]]
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==Reference==
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*[[3D structures of non-human antibody|3D structures of non-human antibody]]
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<ref group="xtra">PMID:014754898</ref><references group="xtra"/>
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Large Structures]]
[[Category: Mus musculus]]
[[Category: Mus musculus]]
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[[Category: Amstutz, P.]]
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[[Category: Amstutz P]]
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[[Category: Cambillau, C.]]
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[[Category: Cambillau C]]
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[[Category: Jermutus, L.]]
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[[Category: Jermutus L]]
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[[Category: Luginbuhl, B.]]
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[[Category: Luginbuhl B]]
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[[Category: Pluckthun, A.]]
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[[Category: Pluckthun A]]
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[[Category: Spinelli, S.]]
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[[Category: Spinelli S]]
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[[Category: Zahnd, C.]]
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[[Category: Zahnd C]]
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[[Category: Antigen peptide binder]]
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[[Category: Fv antibody]]
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[[Category: Immune system]]
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[[Category: Picomolar binder]]
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[[Category: Scfv]]
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Current revision

Three-Dimensional Structure Of a Single Chain Fv Fragment Complexed With The peptide GCN4(7P-14P).

PDB ID 1p4b

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