This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.
Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.
3h6n
From Proteopedia
(Difference between revisions)
| (7 intermediate revisions not shown.) | |||
| Line 1: | Line 1: | ||
| - | {{Seed}} | ||
| - | [[Image:3h6n.jpg|left|200px]] | ||
| - | + | ==Crystal Structure of the ubiquitin-like domain of plexin D1== | |
| - | + | <StructureSection load='3h6n' size='340' side='right'caption='[[3h6n]], [[Resolution|resolution]] 2.00Å' scene=''> | |
| - | + | == Structural highlights == | |
| - | + | <table><tr><td colspan='2'>[[3h6n]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3H6N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3H6N FirstGlance]. <br> | |
| - | + | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ARS:ARSENIC'>ARS</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene></td></tr> | |
| - | + | <tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr> | |
| - | + | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PLXND1, KIAA0620 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=3h6n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3h6n OCA], [https://pdbe.org/3h6n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3h6n RCSB], [https://www.ebi.ac.uk/pdbsum/3h6n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3h6n ProSAT]</span></td></tr> | ||
| + | </table> | ||
| + | == Disease == | ||
| + | [[https://www.uniprot.org/uniprot/PLXD1_HUMAN PLXD1_HUMAN]] Truncus arteriosus. | ||
| + | == Function == | ||
| + | [[https://www.uniprot.org/uniprot/PLXD1_HUMAN PLXD1_HUMAN]] Cell surface receptor for SEMA4A and for class 3 semaphorins, such as SEMA3A, SEMA3C and SEMA3E. Plays an important role in cell-cell signaling, and in regulating the migration of a wide spectrum of cell types. Regulates the migration of thymocytes in the medulla. Regulates endothelial cell migration. Plays an important role in ensuring the specificity of synapse formation. Required for normal development of the heart and vasculature (By similarity). Mediates anti-angiogenic signaling in response to SEMA3E.<ref>PMID:20385769</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/h6/3h6n_consurf.spt"</scriptWhenChecked> | ||
| + | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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=3h6n ConSurf]. | ||
| + | <div style="clear:both"></div> | ||
| - | == | + | ==See Also== |
| - | + | *[[Plexin|Plexin]] | |
| - | + | == References == | |
| - | == | + | <references/> |
| - | + | __TOC__ | |
| - | [[Category: | + | </StructureSection> |
| - | [[Category: Arrowsmith, C H | + | [[Category: Human]] |
| - | [[Category: Bochkarev, A | + | [[Category: Large Structures]] |
| - | [[Category: Bountra, C | + | [[Category: Arrowsmith, C H]] |
| - | [[Category: Buck, M | + | [[Category: Bochkarev, A]] |
| - | [[Category: Edwards, A M | + | [[Category: Bountra, C]] |
| - | [[Category: MacKenzie, F | + | [[Category: Buck, M]] |
| - | [[Category: Nedyalkova, L | + | [[Category: Edwards, A M]] |
| - | [[Category: Park, H | + | [[Category: MacKenzie, F]] |
| - | [[Category: | + | [[Category: Nedyalkova, L]] |
| - | [[Category: Tempel, W | + | [[Category: Park, H]] |
| - | [[Category: Tong, Y | + | [[Category: Structural genomic]] |
| - | [[Category: Weigelt, J | + | [[Category: Tempel, W]] |
| + | [[Category: Tong, Y]] | ||
| + | [[Category: Weigelt, J]] | ||
[[Category: Alternative splicing]] | [[Category: Alternative splicing]] | ||
[[Category: Cell membrane]] | [[Category: Cell membrane]] | ||
| Line 36: | Line 52: | ||
[[Category: Sgc]] | [[Category: Sgc]] | ||
[[Category: Signaling protein]] | [[Category: Signaling protein]] | ||
| - | [[Category: Structural genomics consortium]] | ||
[[Category: Transmembrane]] | [[Category: Transmembrane]] | ||
| - | |||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed May 20 18:06:02 2009'' | ||
Current revision
Crystal Structure of the ubiquitin-like domain of plexin D1
| |||||||||||
Categories: Human | Large Structures | Arrowsmith, C H | Bochkarev, A | Bountra, C | Buck, M | Edwards, A M | MacKenzie, F | Nedyalkova, L | Park, H | Structural genomic | Tempel, W | Tong, Y | Weigelt, J | Alternative splicing | Cell membrane | Glycoprotein | Membrane | Polymorphism | Receptor | Sgc | Signaling protein | Transmembrane
