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| | ==Ras-related protein Rap1B with GppNHp== | | ==Ras-related protein Rap1B with GppNHp== |
| - | <StructureSection load='3x1x' size='340' side='right' caption='[[3x1x]], [[Resolution|resolution]] 1.00Å' scene=''> | + | <StructureSection load='3x1x' size='340' side='right'caption='[[3x1x]], [[Resolution|resolution]] 1.00Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[3x1x]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3X1X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3X1X FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[3x1x]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3X1X OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3X1X FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=GNP:PHOSPHOAMINOPHOSPHONIC+ACID-GUANYLATE+ESTER'>GNP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></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]] 1Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3w1z|3w1z]], [[3w1y|3w1y]], [[3w1w|3w1w]]</td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=GNP:PHOSPHOAMINOPHOSPHONIC+ACID-GUANYLATE+ESTER'>GNP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">Rap1b ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</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=3x1x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3x1x OCA], [https://pdbe.org/3x1x PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3x1x RCSB], [https://www.ebi.ac.uk/pdbsum/3x1x PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3x1x ProSAT]</span></td></tr> |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3x1x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3x1x OCA], [http://pdbe.org/3x1x PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3x1x RCSB], [http://www.ebi.ac.uk/pdbsum/3x1x PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3x1x ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/RAP1B_RAT RAP1B_RAT]] GTP-binding protein that possesses intrinsic GTPase activity. Contributes to the polarizing activity of KRIT1 and CDH5 in the establishment and maintenance of correct endothelial cell polarity and vascular lumen. Required for the localization of phosphorylated PRKCZ, PARD3 and TIAM1 to the cell junction. Plays a role in the establishment of basal endothelial barrier function (By similarity). | + | [https://www.uniprot.org/uniprot/RAP1B_RAT RAP1B_RAT] GTP-binding protein that possesses intrinsic GTPase activity. Contributes to the polarizing activity of KRIT1 and CDH5 in the establishment and maintenance of correct endothelial cell polarity and vascular lumen. Required for the localization of phosphorylated PRKCZ, PARD3 and TIAM1 to the cell junction. Plays a role in the establishment of basal endothelial barrier function (By similarity). |
| - | <div style="background-color:#fffaf0;">
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| - | == Publication Abstract from PubMed ==
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| - | Rap1B is a small GTPase involved in the regulation of numerous cellular processes including synaptic plasticity, one of the bases of memory. Like other members of the Ras family, the active GTP-bound form of Rap1B can bind to a large number of effector proteins and so transmit signals to downstream components of the signaling pathways. The structure of Rap1B bound only to a nucleotide has yet to be solved, but might help reveal an inactive conformation that can be stabilized by a small molecule drug. Unlike other Ras family proteins such as H-Ras and Rap2A, Rap1B crystallizes in an intermediate state when bound to a non-hydrolyzable GTP analog. Comparison with H-Ras and Rap2A reveals conservative mutations relative to Rap1B, distant from the bound nucleotide, which control how readily the protein may adopt the fully activated form in the presence of GTP. High resolution crystallographic structures of mutant proteins show how these changes may influence the hydrogen bonding patterns of the key switch residues.
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| - | The structure and conformational switching of Rap1B.,Noguchi H, Ikegami T, Nagadoi A, Kamatari YO, Park SY, Tame JR, Unzai S Biochem Biophys Res Commun. 2015 Jun 19;462(1):46-51. doi:, 10.1016/j.bbrc.2015.04.103. Epub 2015 Apr 29. PMID:25935485<ref>PMID:25935485</ref>
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| - | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
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| - | </div>
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| - | <div class="pdbe-citations 3x1x" style="background-color:#fffaf0;"></div>
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| | ==See Also== | | ==See Also== |
| - | *[[GTP-binding protein|GTP-binding protein]] | + | *[[GTP-binding protein 3D structures|GTP-binding protein 3D structures]] |
| - | == References ==
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| - | <references/>
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Buffalo rat]] | + | [[Category: Large Structures]] |
| - | [[Category: Ikegami, T]] | + | [[Category: Rattus norvegicus]] |
| - | [[Category: Noguchi, H]] | + | [[Category: Ikegami T]] |
| - | [[Category: Park, S Y]] | + | [[Category: Noguchi H]] |
| - | [[Category: Tame, J R.H]] | + | [[Category: Park SY]] |
| - | [[Category: Unzai, S]] | + | [[Category: Tame JRH]] |
| - | [[Category: Signal transduction]]
| + | [[Category: Unzai S]] |
| - | [[Category: Signaling protein]]
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