2k04

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{{STRUCTURE_2k04| PDB=2k04 | SCENE= }}
 
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===Structure of SDF1 in complex with the CXCR4 N-terminus containing no sulfotyrosines===
 
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{{ABSTRACT_PUBMED_18799424}}
 
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==Disease==
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==Structure of SDF1 in complex with the CXCR4 N-terminus containing no sulfotyrosines==
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[[http://www.uniprot.org/uniprot/CXCR4_HUMAN CXCR4_HUMAN]] Defects in CXCR4 are a cause of WHIM syndrome (WHIM) [MIM:[http://omim.org/entry/193670 193670]]; also known as warts, hypogammaglobulinemia, infections and myelokathexis. WHIM syndrome is an immunodeficiency disease characterized by neutropenia, hypogammaglobulinemia and extensive human papillomavirus (HPV) infection. Despite the peripheral neutropenia, bone marrow aspirates from affected individuals contain abundant mature myeloid cells, a condition termed myelokathexis.<ref>PMID:12692554</ref>
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<StructureSection load='2k04' size='340' side='right'caption='[[2k04]]' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[2k04]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K04 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2K04 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">Solution NMR, 20 models</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=2k04 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k04 OCA], [https://pdbe.org/2k04 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2k04 RCSB], [https://www.ebi.ac.uk/pdbsum/2k04 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2k04 ProSAT]</span></td></tr>
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</table>
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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/k0/2k04_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=2k04 ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Stem cell homing and breast cancer metastasis are orchestrated by the chemokine stromal cell-derived factor 1 (SDF-1) and its receptor CXCR4. Here, we report the nuclear magnetic resonance structure of a constitutively dimeric SDF-1 in complex with a CXCR4 fragment that contains three sulfotyrosine residues important for a high-affinity ligand-receptor interaction. CXCR4 bridged the SDF-1 dimer interface so that sulfotyrosines sTyr7 and sTyr12 of CXCR4 occupied positively charged clefts on opposing chemokine subunits. Dimeric SDF-1 induced intracellular Ca2+ mobilization but had no chemotactic activity; instead, it prevented native SDF-1-induced chemotaxis, suggesting that it acted as a potent partial agonist. Our work elucidates the structural basis for sulfotyrosine recognition in the chemokine-receptor interaction and suggests a strategy for CXCR4-targeted drug development.
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==Function==
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Structural basis of CXCR4 sulfotyrosine recognition by the chemokine SDF-1/CXCL12.,Veldkamp CT, Seibert C, Peterson FC, De la Cruz NB, Haugner JC 3rd, Basnet H, Sakmar TP, Volkman BF Sci Signal. 2008 Sep 16;1(37):ra4. PMID:18799424<ref>PMID:18799424</ref>
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[[http://www.uniprot.org/uniprot/SDF1_HUMAN SDF1_HUMAN]] Chemoattractant active on T-lymphocytes, monocytes, but not neutrophils. Activates the C-X-C chemokine receptor CXCR4 to induce a rapid and transient rise in the level of intracellular calcium ions and chemotaxis. Also binds to another C-X-C chemokine receptor CXCR7, which activates the beta-arrestin pathway and acts as a scavenger receptor for SDF-1. SDF-1-beta(3-72) and SDF-1-alpha(3-67) show a reduced chemotactic activity. Binding to cell surface proteoglycans seems to inhibit formation of SDF-1-alpha(3-67) and thus to preserve activity on local sites. Acts as a positive regulator of monocyte migration and a negative regulator of monocyte adhesion via the LYN kinase. Stimulates migration of monocytes and T-lymphocytes through its receptors, CXCR4 and CXCR7, and decreases monocyte adherence to surfaces coated with ICAM-1, a ligand for beta-2 integrins. SDF1A/CXCR4 signaling axis inhibits beta-2 integrin LFA-1 mediated adhesion of monocytes to ICAM-1 through LYN kinase. Inhibits CXCR4-mediated infection by T-cell line-adapted HIV-1. Plays a protective role after myocardial infarction. Induces down-regulation and internalization of CXCR7 expressed in various cells. Has several critical functions during embryonic development; required for B-cell lymphopoiesis, myelopoiesis in bone marrow and heart ventricular septum formation.<ref>PMID:8752281</ref><ref>PMID:11069075</ref><ref>PMID:11859124</ref><ref>PMID:16107333</ref><ref>PMID:18802065</ref><ref>PMID:19255243</ref> [[http://www.uniprot.org/uniprot/CXCR4_HUMAN CXCR4_HUMAN]] Receptor for the C-X-C chemokine CXCL12/SDF-1 that transduces a signal by increasing intracellular calcium ion levels and enhancing MAPK1/MAPK3 activation. Acts as a receptor for extracellular ubiquitin; leading to enhanced intracellular calcium ions and reduced cellular cAMP levels. Involved in hematopoiesis and in cardiac ventricular septum formation. Also plays an essential role in vascularization of the gastrointestinal tract, probably by regulating vascular branching and/or remodeling processes in endothelial cells. Involved in cerebellar development. In the CNS, could mediate hippocampal-neuron survival. Acts as a coreceptor (CD4 being the primary receptor) for HIV-1 X4 isolates and as a primary receptor for some HIV-2 isolates. Promotes Env-mediated fusion of the virus.<ref>PMID:8329116</ref><ref>PMID:8234909</ref><ref>PMID:8629022</ref><ref>PMID:8752280</ref><ref>PMID:8752281</ref><ref>PMID:10074102</ref><ref>PMID:10644702</ref><ref>PMID:10825158</ref><ref>PMID:17197449</ref><ref>PMID:20048153</ref><ref>PMID:20228059</ref><ref>PMID:20505072</ref>
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==About this Structure==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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[[2k04]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K04 OCA].
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</div>
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<div class="pdbe-citations 2k04" style="background-color:#fffaf0;"></div>
==See Also==
==See Also==
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*[[C-X-C motif chemokine 3D structures|C-X-C motif chemokine 3D structures]]
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*[[CXC chemokine receptor|CXC chemokine receptor]]
*[[CXC chemokine receptor type 4|CXC chemokine receptor type 4]]
*[[CXC chemokine receptor type 4|CXC chemokine receptor type 4]]
*[[Stromal Derived Factor 1|Stromal Derived Factor 1]]
*[[Stromal Derived Factor 1|Stromal Derived Factor 1]]
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== References ==
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==Reference==
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<references/>
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<ref group="xtra">PMID:018799424</ref><references group="xtra"/><references/>
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__TOC__
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</StructureSection>
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
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[[Category: Peterson, F C.]]
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[[Category: Large Structures]]
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[[Category: Veldkamp, C T.]]
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[[Category: Peterson FC]]
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[[Category: Volkman, B F.]]
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[[Category: Veldkamp CT]]
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[[Category: Chemokine]]
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[[Category: Volkman BF]]
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[[Category: Chemotaxis]]
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[[Category: Cxcl12]]
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[[Category: Cxcr4]]
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[[Category: Cytokine]]
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[[Category: G-protein coupled receptor]]
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[[Category: Glycoprotein]]
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[[Category: Growth factor]]
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[[Category: Host-virus interaction]]
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[[Category: Locked dimer]]
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[[Category: Membrane]]
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[[Category: Receptor]]
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[[Category: Sdf1-alpha]]
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[[Category: Secreted]]
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[[Category: Stromal cell derived factor-1]]
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[[Category: Sulfation]]
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[[Category: Transducer]]
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[[Category: Transmembrane]]
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Current revision

Structure of SDF1 in complex with the CXCR4 N-terminus containing no sulfotyrosines

PDB ID 2k04

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