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1mqk

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[[Image:1mqk.jpg|left|200px]]
 
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==Crystal structure of the unliganded Fv-fragment of the anti-cytochrome C oxidase antibody 7E2==
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The line below this paragraph, containing "STRUCTURE_1mqk", creates the "Structure Box" on the page.
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<StructureSection load='1mqk' size='340' side='right'caption='[[1mqk]], [[Resolution|resolution]] 1.28&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[1mqk]] is a 2 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=1MQK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1MQK FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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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]] 1.28&#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=1mqk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mqk OCA], [https://pdbe.org/1mqk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1mqk RCSB], [https://www.ebi.ac.uk/pdbsum/1mqk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1mqk ProSAT]</span></td></tr>
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{{STRUCTURE_1mqk| PDB=1mqk | SCENE= }}
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/KV5A4_MOUSE KV5A4_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/mq/1mqk_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=1mqk ConSurf].
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<div style="clear:both"></div>
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'''Crystal structure of the unliganded Fv-fragment of the anti-cytochrome C oxidase antibody 7E2'''
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==See Also==
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*[[Monoclonal Antibodies 3D structures|Monoclonal Antibodies 3D structures]]
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__TOC__
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==Overview==
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</StructureSection>
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The antibody Fv fragment 7E2 has previously been employed in the induced crystallization of the integral membrane protein cytochrome c oxidase from Paracoccus denitrificans. The 1.3 A X-ray structure of the uncomplexed antibody fragment reveals conserved water networks on the surfaces of the framework regions. A novel consensus motif for water coordination, XX(S/T), is found along the edges of the beta-sandwich, where a water molecule forms hydrogen bonds to the carbonyl O atom of a residue at position N and the OG hydroxyl groups of conserved serines or threonines at position N + 2. Multiple conformations were found in the hydrophobic core for residues IleL21, LeuL33 and the disulfide bridges. An internal water molecule that is compatible with only one of the three packing states of the V(L) core suggests local 'breathing' of the variable domain. TrpH47, a conserved key residue of the V(H)/V(L) interface, is crucially involved in the formation of the antigen-binding site by adopting a novel conformation that specifically stabilizes the non-canonical CDR-L3 loop. Finally, a comparison with 7E2-cytochrome c oxidase complexes demonstrates that binding of this membrane-bound antigen proceeds without major conformational changes of the 7E2 antibody fragment.
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[[Category: Large Structures]]
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==About this Structure==
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1MQK is a [[Protein complex]] structure of sequences 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=1MQK OCA].
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==Reference==
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1.3 A X-ray structure of an antibody Fv fragment used for induced membrane-protein crystallization., Essen LO, Harrenga A, Ostermeier C, Michel H, Acta Crystallogr D Biol Crystallogr. 2003 Apr;59(Pt 4):677-87. Epub 2003, Mar 25. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12657787 12657787]
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[[Category: Mus musculus]]
[[Category: Mus musculus]]
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[[Category: Protein complex]]
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[[Category: Essen L-O]]
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[[Category: Essen, L O.]]
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[[Category: Harrenga A]]
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[[Category: Harrenga, A.]]
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[[Category: Michel H]]
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[[Category: Michel, H.]]
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[[Category: Ostermeier C]]
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[[Category: Ostermeier, C.]]
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[[Category: Antibody]]
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[[Category: Cytochrome c oxidase]]
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[[Category: High-resolution structure]]
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[[Category: Membrane protein]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 01:36:08 2008''
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Current revision

Crystal structure of the unliganded Fv-fragment of the anti-cytochrome C oxidase antibody 7E2

PDB ID 1mqk

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