1wrf: Difference between revisions

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{{Seed}}
[[Image:1wrf.png|left|200px]]


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==Refined solution structure of Der f 2, The Major Mite Allergen from Dermatophagoides farinae==
The line below this paragraph, containing "STRUCTURE_1wrf", creates the "Structure Box" on the page.
<StructureSection load='1wrf' size='340' side='right'caption='[[1wrf]]' scene=''>
You may change the PDB parameter (which sets the PDB file loaded into the applet)
== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[1wrf]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Dermatophagoides_farinae Dermatophagoides farinae]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WRF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1WRF FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR, 11 models</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=1wrf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1wrf OCA], [https://pdbe.org/1wrf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1wrf RCSB], [https://www.ebi.ac.uk/pdbsum/1wrf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1wrf ProSAT]</span></td></tr>
{{STRUCTURE_1wrf|  PDB=1wrf  |  SCENE=  }}
</table>
== Function ==
[https://www.uniprot.org/uniprot/ALL2_DERFA ALL2_DERFA]
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/wr/1wrf_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
    <text>to colour the structure by Evolutionary Conservation</text>
  </jmolCheckbox>
</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=1wrf ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Group 2 major mite allergens Der f 2 and Der p 2 are classified into the recently identified group of MD-2-related lipid-recognition (ML) proteins, but the ligands and biological functions of these allergens are unknown. We have obtained a high-quality NMR structure for Der f 2, and found that it is more similar to the crystal structure of NPC2, a distant homologue, than to that of Der p 2, in terms of the separation and angle between the two major beta-sheets. This made us propose that ML proteins undergo clamshell-like motions that change the sizes of ligand-binding spaces inside their immunoglobulin-fold beta-sandwich to accommodate lipid molecules. This type of motion in lipopolysaccaride recognition of MD-2 is suggested to be likely as well by structural models. We also report the applicability of NMR differential exchange broadening experiments for complexes of intact monoclonal antibodies and antigens; using this technique, we have detected the conformational epitopes for monoclonal antibodies 15E11 and 13A4 as two separate surface patches.


===Refined solution structure of Der f 2, The Major Mite Allergen from Dermatophagoides farinae===
NMR study on the major mite allergen Der f 2: its refined tertiary structure, epitopes for monoclonal antibodies and characteristics shared by ML protein group members.,Ichikawa S, Takai T, Inoue T, Yuuki T, Okumura Y, Ogura K, Inagaki F, Hatanaka H J Biochem. 2005 Mar;137(3):255-63. PMID:15809326<ref>PMID:15809326</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
The line below this paragraph, {{ABSTRACT_PUBMED_15809326}}, adds the Publication Abstract to the page
<div class="pdbe-citations 1wrf" style="background-color:#fffaf0;"></div>
(as it appears on PubMed at http://www.pubmed.gov), where 15809326 is the PubMed ID number.
== References ==
-->
<references/>
{{ABSTRACT_PUBMED_15809326}}
__TOC__
 
</StructureSection>
==About this Structure==
1WRF is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Dermatophagoides_farinae Dermatophagoides farinae]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WRF OCA].
 
==Reference==
<ref group="xtra">PMID:15809326</ref><ref group="xtra">PMID:9417088</ref><references group="xtra"/>
[[Category: Dermatophagoides farinae]]
[[Category: Dermatophagoides farinae]]
[[Category: Hatanaka, H.]]
[[Category: Large Structures]]
[[Category: Ichikawa, S.]]
[[Category: Hatanaka H]]
[[Category: Inagaki, F.]]
[[Category: Ichikawa S]]
[[Category: Inoue, T.]]
[[Category: Inagaki F]]
[[Category: Ogura, K.]]
[[Category: Inoue T]]
[[Category: Okumura, Y.]]
[[Category: Ogura K]]
[[Category: Takai, T.]]
[[Category: Okumura Y]]
[[Category: Yuuki, T.]]
[[Category: Takai T]]
[[Category: Allergen]]
[[Category: Yuuki T]]
[[Category: Immunoglobulin fold]]
 
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Retrieved from "https://proteopedia.org/1wrf"