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1ldq

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[[Image:1ldq.gif|left|200px]]<br /><applet load="1ldq" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="1ldq, resolution 2.7&Aring;" />
 
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'''avidin-homobiotin complex'''<br />
 
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==Overview==
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==avidin-homobiotin complex==
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We have studied the structural elements that affect ligand exchange between the two high affinity biotin-binding proteins, egg white avidin and its bacterial analogue, streptavidin. For this purpose, we have developed a simple assay based on the antipodal behavior of the two proteins toward hydrolysis of biotinyl p-nitrophenyl ester (BNP). The assay provided the experimental basis for these studies. It was found that biotin migrates unidirectionally from streptavidin to avidin. Conversely, the biotin derivative, BNP, is transferred in the opposite direction, from avidin to streptavidin. A previous crystallographic study (Huberman, T., Eisenberg-Domovich, Y., Gitlin, G., Kulik, T., Bayer, E. A., Wilchek, M., and Livnah, O. (2001) J. Biol. Chem. 276, 32031-32039) provided insight into a plausible explanation for these results. These data revealed that the non-hydrolyzable BNP analogue, biotinyl p-nitroanilide, was almost completely sheltered in streptavidin as opposed to avidin in which the disordered conformation of a critical loop resulted in the loss of several hydrogen bonds and concomitant exposure of the analogue to the solvent. In order to determine the minimal modification of the biotin molecule required to cause the disordered loop conformation, the structures of avidin and streptavidin were determined with norbiotin, homobiotin, and a common long-chain biotin derivative, biotinyl epsilon-aminocaproic acid. Six new crystal structures of the avidin and streptavidin complexes with the latter biotin analogues and derivatives were thus elucidated. It was found that extending the biotin side chain by a single CH(2) group (i.e. homobiotin) is sufficient to result in this remarkable conformational change in the loop of avidin. These results bear significant biotechnological importance, suggesting that complexes containing biotinylated probes with streptavidin would be more stable than those with avidin. These findings should be heeded when developing new drugs based on lead compounds because it is difficult to predict the structural and conformational consequences on the resultant protein-ligand interactions.
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<StructureSection load='1ldq' size='340' side='right'caption='[[1ldq]], [[Resolution|resolution]] 2.70&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1ldq]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LDQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1LDQ 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]] 2.7&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SHM:HOMOBIOTIN'>SHM</scene></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=1ldq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ldq OCA], [https://pdbe.org/1ldq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ldq RCSB], [https://www.ebi.ac.uk/pdbsum/1ldq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ldq ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/AVID_CHICK AVID_CHICK] The biological function of avidin is not known. Forms a strong non-covalent specific complex with biotin (one molecule of biotin per subunit of avidin).
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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/ld/1ldq_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=1ldq ConSurf].
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<div style="clear:both"></div>
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==About this Structure==
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==See Also==
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1LDQ is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus] with <scene name='pdbligand=NDG:'>NDG</scene> and <scene name='pdbligand=SHM:'>SHM</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LDQ OCA].
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*[[Avidin 3D structures|Avidin 3D structures]]
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__TOC__
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==Reference==
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</StructureSection>
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Ligand exchange between proteins. Exchange of biotin and biotin derivatives between avidin and streptavidin., Pazy Y, Kulik T, Bayer EA, Wilchek M, Livnah O, J Biol Chem. 2002 Aug 23;277(34):30892-900. Epub 2002 Jun 7. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12055191 12055191]
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[[Category: Gallus gallus]]
[[Category: Gallus gallus]]
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[[Category: Single protein]]
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[[Category: Large Structures]]
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[[Category: Bayer, E A.]]
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[[Category: Bayer EA]]
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[[Category: Kulik, T.]]
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[[Category: Kulik T]]
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[[Category: Livnah, O.]]
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[[Category: Livnah O]]
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[[Category: Pazy, Y.]]
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[[Category: Pazy Y]]
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[[Category: Wilchek, M.]]
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[[Category: Wilchek M]]
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[[Category: NDG]]
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[[Category: SHM]]
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[[Category: avidin]]
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[[Category: biotin]]
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[[Category: ligand exchange]]
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[[Category: streptavidin]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 13:44:01 2008''
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Current revision

avidin-homobiotin complex

PDB ID 1ldq

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