6z1v: Difference between revisions

Latest revision as of 07:40, 1 May 2024

Structure of the EC2 domain of CD9 in complex with nanobody 4E8

Structural highlights

6z1v is a 2 chain structure with sequence from Homo sapiens and Lama glama. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.33Å
Ligands:	ACY, EDO, PGE
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

CD9_HUMAN Integral membrane protein associated with integrins, which regulates different processes, such as sperm-egg fusion, platelet activation and aggregation, and cell adhesion (PubMed:8478605, PubMed:14575715, PubMed:18541721). Present at the cell surface of oocytes and plays a key role in sperm-egg fusion, possibly by organizing multiprotein complexes and the morphology of the membrane required for the fusion (By similarity). In myoblasts, associates with CD81 and PTGFRN and inhibits myotube fusion during muscle regeneration (By similarity). In macrophages, associates with CD81 and beta-1 and beta-2 integrins, and prevents macrophage fusion into multinucleated giant cells specialized in ingesting complement-opsonized large particles (PubMed:12796480). Also prevents the fusion between mononuclear cell progenitors into osteoclasts in charge of bone resorption (By similarity). Acts as a receptor for PSG17 (By similarity). Involved in platelet activation and aggregation (PubMed:18541721). Regulates paranodal junction formation (By similarity). Involved in cell adhesion, cell motility and tumor metastasis (PubMed:8478605, PubMed:7511626).[UniProtKB:P40240]^[1] ^[2] ^[3] ^[4] ^[5]

References

↑ Takeda Y, Tachibana I, Miyado K, Kobayashi M, Miyazaki T, Funakoshi T, Kimura H, Yamane H, Saito Y, Goto H, Yoneda T, Yoshida M, Kumagai T, Osaki T, Hayashi S, Kawase I, Mekada E. Tetraspanins CD9 and CD81 function to prevent the fusion of mononuclear phagocytes. J Cell Biol. 2003 Jun 9;161(5):945-56. doi: 10.1083/jcb.200212031. PMID:12796480 doi:https://dx.doi.org/10.1083/jcb.200212031
↑ Higginbottom A, Takahashi Y, Bolling L, Coonrod SA, White JM, Partridge LJ, Monk PN. Structural requirements for the inhibitory action of the CD9 large extracellular domain in sperm/oocyte binding and fusion. Biochem Biophys Res Commun. 2003 Nov 7;311(1):208-14. doi:, 10.1016/j.bbrc.2003.09.196. PMID:14575715 doi:https://dx.doi.org/10.1016/j.bbrc.2003.09.196
↑ Nakazawa Y, Sato S, Naito M, Kato Y, Mishima K, Arai H, Tsuruo T, Fujita N. Tetraspanin family member CD9 inhibits Aggrus/podoplanin-induced platelet aggregation and suppresses pulmonary metastasis. Blood. 2008 Sep 1;112(5):1730-9. doi: 10.1182/blood-2007-11-124693. Epub 2008 Jun, 9. PMID:18541721 doi:https://dx.doi.org/10.1182/blood-2007-11-124693
↑ Masellis-Smith A, Shaw AR. CD9-regulated adhesion. Anti-CD9 monoclonal antibody induce pre-B cell adhesion to bone marrow fibroblasts through de novo recognition of fibronectin. J Immunol. 1994 Mar 15;152(6):2768-77. PMID:7511626
↑ Ikeyama S, Koyama M, Yamaoko M, Sasada R, Miyake M. Suppression of cell motility and metastasis by transfection with human motility-related protein (MRP-1/CD9) DNA. J Exp Med. 1993 May 1;177(5):1231-7. doi: 10.1084/jem.177.5.1231. PMID:8478605 doi:https://dx.doi.org/10.1084/jem.177.5.1231

Proteopedia Page Contributors and Editors (what is this?)

OCA

[1] Takeda Y, Tachibana I, Miyado K, Kobayashi M, Miyazaki T, Funakoshi T, Kimura H, Yamane H, Saito Y, Goto H, Yoneda T, Yoshida M, Kumagai T, Osaki T, Hayashi S, Kawase I, Mekada E. Tetraspanins CD9 and CD81 function to prevent the fusion of mononuclear phagocytes. J Cell Biol. 2003 Jun 9;161(5):945-56. doi: 10.1083/jcb.200212031. PMID:12796480 doi:https://dx.doi.org/10.1083/jcb.200212031

[2] Higginbottom A, Takahashi Y, Bolling L, Coonrod SA, White JM, Partridge LJ, Monk PN. Structural requirements for the inhibitory action of the CD9 large extracellular domain in sperm/oocyte binding and fusion. Biochem Biophys Res Commun. 2003 Nov 7;311(1):208-14. doi:, 10.1016/j.bbrc.2003.09.196. PMID:14575715 doi:https://dx.doi.org/10.1016/j.bbrc.2003.09.196

[3] Nakazawa Y, Sato S, Naito M, Kato Y, Mishima K, Arai H, Tsuruo T, Fujita N. Tetraspanin family member CD9 inhibits Aggrus/podoplanin-induced platelet aggregation and suppresses pulmonary metastasis. Blood. 2008 Sep 1;112(5):1730-9. doi: 10.1182/blood-2007-11-124693. Epub 2008 Jun, 9. PMID:18541721 doi:https://dx.doi.org/10.1182/blood-2007-11-124693

[4] Masellis-Smith A, Shaw AR. CD9-regulated adhesion. Anti-CD9 monoclonal antibody induce pre-B cell adhesion to bone marrow fibroblasts through de novo recognition of fibronectin. J Immunol. 1994 Mar 15;152(6):2768-77. PMID:7511626

[5] Ikeyama S, Koyama M, Yamaoko M, Sasada R, Miyake M. Suppression of cell motility and metastasis by transfection with human motility-related protein (MRP-1/CD9) DNA. J Exp Med. 1993 May 1;177(5):1231-7. doi: 10.1084/jem.177.5.1231. PMID:8478605 doi:https://dx.doi.org/10.1084/jem.177.5.1231

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@@ Line 1: / Line 1: @@
-====
+==Structure of the EC2 domain of CD9 in complex with nanobody 4E8==
-<StructureSection load='6z1v' size='340' side='right'caption='[[6z1v]]' scene=''>
+<StructureSection load='6z1v' size='340' side='right'caption='[[6z1v]], [[Resolution|resolution]] 1.33&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
+<table><tr><td colspan='2'>[[6z1v]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Lama_glama Lama glama]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6Z1V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6Z1V FirstGlance]. <br>
-</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6z1v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6z1v OCA], [http://pdbe.org/6z1v PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6z1v RCSB], [http://www.ebi.ac.uk/pdbsum/6z1v PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6z1v ProSAT]</span></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.33&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</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=6z1v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6z1v OCA], [https://pdbe.org/6z1v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6z1v RCSB], [https://www.ebi.ac.uk/pdbsum/6z1v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6z1v ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/CD9_HUMAN CD9_HUMAN] Integral membrane protein associated with integrins, which regulates different processes, such as sperm-egg fusion, platelet activation and aggregation, and cell adhesion (PubMed:8478605, PubMed:14575715, PubMed:18541721). Present at the cell surface of oocytes and plays a key role in sperm-egg fusion, possibly by organizing multiprotein complexes and the morphology of the membrane required for the fusion (By similarity). In myoblasts, associates with CD81 and PTGFRN and inhibits myotube fusion during muscle regeneration (By similarity). In macrophages, associates with CD81 and beta-1 and beta-2 integrins, and prevents macrophage fusion into multinucleated giant cells specialized in ingesting complement-opsonized large particles (PubMed:12796480). Also prevents the fusion between mononuclear cell progenitors into osteoclasts in charge of bone resorption (By similarity). Acts as a receptor for PSG17 (By similarity). Involved in platelet activation and aggregation (PubMed:18541721). Regulates paranodal junction formation (By similarity). Involved in cell adhesion, cell motility and tumor metastasis (PubMed:8478605, PubMed:7511626).[UniProtKB:P40240]<ref>PMID:12796480</ref> <ref>PMID:14575715</ref> <ref>PMID:18541721</ref> <ref>PMID:7511626</ref> <ref>PMID:8478605</ref>
+==See Also==
+*[[Antibody 3D structures|Antibody 3D structures]]
+== References ==
+<references/>
 __TOC__
 </StructureSection>
+[[Category: Homo sapiens]]
+[[Category: Lama glama]]
 [[Category: Large Structures]]
-[[Category: Z-disk]]
+[[Category: Gros P]]
+[[Category: Oosterheert W]]
+[[Category: Pearce NM]]

6z1v: Difference between revisions

Latest revision as of 07:40, 1 May 2024

Structure of the EC2 domain of CD9 in complex with nanobody 4E8

Structural highlights

Function

See Also

References

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