1z06: Difference between revisions

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

OCA

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-[[Image:1z06.gif|left|200px]]<br /><applet load="1z06" size="450" color="white" frame="true" align="right" spinBox="true"
-caption="1z06, resolution 1.81&Aring;" />
-'''GppNHp-Bound Rab33 GTPase'''<br />
-==Overview==
+==GppNHp-Bound Rab33 GTPase==
-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='1z06' size='340' side='right'caption='[[1z06]], [[Resolution|resolution]] 1.81&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1z06]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z06 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Z06 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]] 1.81&#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=1z06 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z06 OCA], [https://pdbe.org/1z06 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1z06 RCSB], [https://www.ebi.ac.uk/pdbsum/1z06 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1z06 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/RB33B_MOUSE RB33B_MOUSE] Protein transport. Acts, in coordination with RAB6A, to regulate intra-Golgi retrograde trafficking (By similarity). It is involved in autophagy, acting as a modulator of autophagosome formation.<ref>PMID:18448665</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/z0/1z06_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=1z06 ConSurf].
+<div style="clear:both"></div>
-==About this Structure==
+==See Also==
-Z06 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus] 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=1Z06 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: Large Structures]]
 [[Category: Mus musculus]]
-[[Category: Single protein]]
+[[Category: Eathiraj S]]
-[[Category: Eathiraj, S.]]
+[[Category: Lambright DG]]
-[[Category: Lambright, D.G.]]
+[[Category: Pan X]]
-[[Category: Pan, X.]]
+[[Category: Ritacco C]]
-[[Category: Ritacco, C.]]
-[[Category: GNP]]
-[[Category: MG]]
-[[Category: protein transport]]
-[[Category: rab gtpase]]
-[[Category: rab33b gtpase]]
-[[Category: vesicular trafficking]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 07:09:43 2007''