3m7o: Difference between revisions

From Proteopedia
Jump to navigationJump to search
← Older edit
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,331,613 edits
No edit summary
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,331,613 edits
No edit summary
 
(3 intermediate revisions by the same user not shown)
Line 1: Line 1:
{{STRUCTURE_3m7o|  PDB=3m7o  |  SCENE=  }}
===Crystal structure of mouse MD-1 in complex with phosphatidylcholine===
{{ABSTRACT_PUBMED_20595044}}


==Function==
==Crystal structure of mouse MD-1 in complex with phosphatidylcholine==
[[http://www.uniprot.org/uniprot/LY86_MOUSE LY86_MOUSE]] May cooperate with CD180 and TLR4 to mediate the innate immune response to bacterial lipopolysaccharide (LPS) and cytokine production. Important for efficient CD180 cell surface expression.<ref>PMID:10925274</ref>
<StructureSection load='3m7o' size='340' side='right'caption='[[3m7o]], [[Resolution|resolution]] 1.65&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[3m7o]] is a 4 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=3M7O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3M7O FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.65&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=L9R:(2S)-3-(OCTADECANOYLOXY)-2-[(9Z)-OCTADEC-9-ENOYLOXY]PROPYL+2-(TRIMETHYLAMMONIO)ETHYL+PHOSPHATE'>L9R</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></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=3m7o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3m7o OCA], [https://pdbe.org/3m7o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3m7o RCSB], [https://www.ebi.ac.uk/pdbsum/3m7o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3m7o ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/LY86_MOUSE LY86_MOUSE] May cooperate with CD180 and TLR4 to mediate the innate immune response to bacterial lipopolysaccharide (LPS) and cytokine production. Important for efficient CD180 cell surface expression.<ref>PMID:10925274</ref>  
== 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/m7/3m7o_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=3m7o ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
MD-1 is a glycoprotein that associates with a B-cell-specific RP105 protein and has a low sequence identity of 16% to MD-2 that associates with Toll-like receptor 4 and recognizes endotoxic lipopolysaccharide. MD-1 and RP105 are supposed to mediate lipopolysaccharide recognition; however, little is known about their structures and functions. Here, the crystal structure of mouse MD-1 is determined at 1.65 A resolution. MD-1 has a hydrophobic cavity sandwiched by two beta-sheets as is MD-2. The cavity is 25 A long, 5 A wide, and 10 A deep: longer, narrower, and shallower than that of MD-2. No charged residues are located on the cavity entrance. MD-1 is primarily monomeric in solution but shows a dimeric assembly in the crystal lattices, with their cavity entrances facing each other. In the cavity, electron densities attributable to phosphatidylcholine are located. Together with the binding assay with tetra-acylated lipid IVa, MD-1 is shown to be a lipid-binding coreceptor.


==About this Structure==
Crystal structure of mouse MD-1 with endogenous phospholipid bound in its cavity.,Harada H, Ohto U, Satow Y J Mol Biol. 2010 Jul 23;400(4):838-46. Epub 2010 Jun 1. PMID:20595044<ref>PMID:20595044</ref>
[[3m7o]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3M7O OCA].


==Reference==
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
<ref group="xtra">PMID:020595044</ref><references group="xtra"/><references/>
</div>
[[Category: Lk3 transgenic mice]]
<div class="pdbe-citations 3m7o" style="background-color:#fffaf0;"></div>
[[Category: Harada, H.]]
== References ==
[[Category: Ohto, U.]]
<references/>
[[Category: Satow, Y.]]
__TOC__
[[Category: Beta sheet]]
</StructureSection>
[[Category: Glycoprotein]]
[[Category: Large Structures]]
[[Category: Immune system]]
[[Category: Mus musculus]]
[[Category: Immunity]]
[[Category: Harada H]]
[[Category: Inflammatory response]]
[[Category: Ohto U]]
[[Category: Innate immunity]]
[[Category: Satow Y]]
[[Category: Secreted]]
Retrieved from "https://proteopedia.org/3m7o"