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3bib

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[[Image:3bib.jpg|left|200px]]
 
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==Tim-4 in complex with phosphatidylserine==
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The line below this paragraph, containing "STRUCTURE_3bib", creates the "Structure Box" on the page.
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<StructureSection load='3bib' size='340' side='right'caption='[[3bib]], [[Resolution|resolution]] 2.50&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'>[[3bib]] is a 1 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=3BIB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BIB 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]] 2.5&#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=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PSF:1,2-DICAPROYL-SN-PHOSPHATIDYL-L-SERINE'>PSF</scene></td></tr>
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{{STRUCTURE_3bib| PDB=3bib | SCENE= }}
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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=3bib FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bib OCA], [https://pdbe.org/3bib PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bib RCSB], [https://www.ebi.ac.uk/pdbsum/3bib PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bib ProSAT]</span></td></tr>
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</table>
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'''Tim-4 in complex with phosphatidylserine'''
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== Function ==
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[https://www.uniprot.org/uniprot/TIMD4_MOUSE TIMD4_MOUSE] Phosphatidylserine receptor that enhances the engulfment of apoptotic cells. Involved in regulating T-cell proliferation and lymphotoxin signaling. Ligand for HAVCR1/TIMD1.<ref>PMID:14768054</ref> <ref>PMID:15793576</ref> <ref>PMID:17960135</ref>
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== Evolutionary Conservation ==
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==Overview==
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[[Image:Consurf_key_small.gif|200px|right]]
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The T cell immunoglobulin and mucin domain (TIM) proteins are important regulators of T cell responses. Crystal structures of the murine TIM-4 identified a metal-ion-dependent ligand binding site (MILIBS) in the immunoglobulin (Ig) domain of the TIM family. The characteristic CC' loop of the TIM domain and the hydrophobic FG loop shaped a narrow cavity where acidic compounds penetrate and coordinate to a metal ion bound to conserved residues in the TIM proteins. The structure of phosphatidylserine bound to the Ig domain showed that the hydrophilic head penetrates into the MILIBS and coordinates with the metal ion, whereas the aromatic residues on the tip of the FG loop interacted with the fatty acid chains and could insert into the lipid bilayer. Our results also revealed an important role of the MILIBS in the trafficking of TIM-1 to the cell surface.
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Check<jmol>
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<jmolCheckbox>
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==About this Structure==
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bi/3bib_consurf.spt"</scriptWhenChecked>
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3BIB is a [[Single protein]] structure of 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=3BIB OCA].
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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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==Reference==
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</jmolCheckbox>
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Structures of T cell immunoglobulin mucin protein 4 show a metal-Ion-dependent ligand binding site where phosphatidylserine binds., Santiago C, Ballesteros A, Martinez-Munoz L, Mellado M, Kaplan GG, Freeman GJ, Casasnovas JM, Immunity. 2007 Dec;27(6):941-51. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18083575 18083575]
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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=3bib ConSurf].
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<div style="clear:both"></div>
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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: Single protein]]
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[[Category: Ballesteros A]]
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[[Category: Ballesteros, A.]]
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[[Category: Casasnovas JM]]
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[[Category: Casasnovas, J M.]]
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[[Category: Freeman GJ]]
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[[Category: Freeman, G J.]]
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[[Category: Kaplan GG]]
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[[Category: Kaplan, G G.]]
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[[Category: Santiago C]]
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[[Category: Santiago, C.]]
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[[Category: Beta barrel]]
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[[Category: Glycoprotein]]
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[[Category: Igv domain]]
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[[Category: Immune system]]
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[[Category: Immunoglobulin domain]]
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[[Category: Immunoglobulin fold]]
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[[Category: Membrane]]
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[[Category: Polymorphism]]
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[[Category: Tim]]
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[[Category: Transmembrane]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 20:48:00 2008''
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Current revision

Tim-4 in complex with phosphatidylserine

PDB ID 3bib

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