1yzt: Difference between revisions

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
-[[Image:1yzt.gif|left|200px]]<br />
-<applet load="1yzt" size="450" color="white" frame="true" align="right" spinBox="true"
-caption="1yzt, resolution 2.05&Aring;" />
-'''GppNHp-Bound Rab21 GTPase at 2.05 A Resolution'''<br />
-==Overview==
+==GppNHp-Bound Rab21 GTPase at 2.05 A Resolution==
-Rab GTPases regulate all stages of membrane trafficking, including vesicle, budding, cargo sorting, transport, tethering and fusion. In the inactive, (GDP-bound) conformation, accessory factors facilitate the targeting of, Rab GTPases to intracellular compartments. After nucleotide exchange to, the active (GTP-bound) conformation, Rab GTPases interact with, functionally diverse effectors including lipid kinases, motor proteins and, tethering complexes. How effectors distinguish between homologous Rab, GTPases represents an unresolved problem with respect to the specificity, of vesicular trafficking. Using a structural proteomic approach, we have, determined the specificity and structural basis underlying the interaction, of the multivalent effector rabenosyn-5 with the Rab family. The results, demonstrate that even the structurally similar effector domains in, rabenosyn-5 can achieve highly selective recognition of distinct subsets, of Rab GTPases exclusively through interactions with the switch and, interswitch regions. The observed specificity is determined at a, family-wide level by structural diversity in the active conformation, which governs the spatial disposition of critical conserved recognition, determinants, and by a small number of both positive and negative sequence, determinants that allow further discrimination between Rab GTPases with, similar switch conformations.
+<StructureSection load='1yzt' size='340' side='right'caption='[[1yzt]], [[Resolution|resolution]] 2.05&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1yzt]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YZT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YZT FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.05&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GNP:PHOSPHOAMINOPHOSPHONIC+ACID-GUANYLATE+ESTER'>GNP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=1yzt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yzt OCA], [https://pdbe.org/1yzt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1yzt RCSB], [https://www.ebi.ac.uk/pdbsum/1yzt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1yzt ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/RAB21_HUMAN RAB21_HUMAN] Regulates integrin internalization and recycling, but does not influence the traffic of endosomally translocated receptors in general. As a result, may regulate cell adhesion and migration (By similarity). During the mitosis of adherent cells, controls the endosomal trafficking of integrins which is required for the successful completion of cytokinesis.<ref>PMID:18804435</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/yz/1yzt_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=1yzt ConSurf].
+<div style="clear:both"></div>
-==About this Structure==
+==See Also==
-YZT is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] with MG and GNP as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1YZT OCA].
+*[[Ras-related protein Rab 3D structures|Ras-related protein Rab 3D structures]]
+== References ==
-==Reference==
+<references/>
-Structural basis of family-wide Rab GTPase recognition by rabenosyn-5., Eathiraj S, Pan X, Ritacco C, Lambright DG, Nature. 2005 Jul 21;436(7049):415-9. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16034420 16034420]
+__TOC__
+</StructureSection>
 [[Category: Homo sapiens]]
-[[Category: Single protein]]
+[[Category: Large Structures]]
-[[Category: Eathiraj, S.]]
+[[Category: Eathiraj S]]
-[[Category: Lambright, D.G.]]
+[[Category: Lambright DG]]
-[[Category: Pan, X.]]
+[[Category: Pan X]]
-[[Category: Ritacco, C.]]
+[[Category: Ritacco C]]
-[[Category: GNP]]
-[[Category: MG]]
-[[Category: protein transport]]
-[[Category: rab gtpase]]
-[[Category: rab21]]
-[[Category: vesicular trafficking]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Mon Nov 12 20:27:35 2007''