3nkv: Difference between revisions

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-{{STRUCTURE_3nkv|  PDB=3nkv  |  SCENE=  }}
-===Crystal structure of Rab1b covalently modified with AMP at Y77===
-{{ABSTRACT_PUBMED_20651120}}
-==Function==
+==Crystal structure of Rab1b covalently modified with AMP at Y77==
-[[http://www.uniprot.org/uniprot/RAB1B_HUMAN RAB1B_HUMAN]] Protein transport. Regulates vesicular transport between the endoplasmic reticulum and successive Golgi compartments.<ref>PMID:9437002</ref>
+<StructureSection load='3nkv' size='340' side='right'caption='[[3nkv]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[3nkv]] 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=3NKV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3NKV 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]] 1.7&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AMP:ADENOSINE+MONOPHOSPHATE'>AMP</scene>, <scene name='pdbligand=BA:BARIUM+ION'>BA</scene>, <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=3nkv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3nkv OCA], [https://pdbe.org/3nkv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3nkv RCSB], [https://www.ebi.ac.uk/pdbsum/3nkv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3nkv ProSAT]</span></td></tr>
+</table>
+== 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/nk/3nkv_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=3nkv ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+In the course of Legionnaires' disease, the bacterium Legionella pneumophila affects the intracellular vesicular trafficking of infected eukaryotic cells by recruiting the small guanosine triphosphatase (GTPase) Rab1 to the cytosolic face of the Legionella-containing vacuole. In order to accomplish this, the Legionella protein DrrA contains a specific guanine nucleotide exchange activity for Rab1 activation that exchanges guanosine triphosphate (GTP) for guanosine diphosphate on Rab1. We found that the amino-terminal domain of DrrA possesses adenosine monophosphorylation (AMPylation) activity toward the switch II region of Rab1b, leading to posttranslational covalent modification of tyrosine 77. AMPylation of switch II by DrrA restricts the access of GTPase activating proteins, thereby rendering Rab1b constitutively active.
-==About this Structure==
+The Legionella effector protein DrrA AMPylates the membrane traffic regulator Rab1b.,Muller MP, Peters H, Blumer J, Blankenfeldt W, Goody RS, Itzen A Science. 2010 Aug 20;329(5994):946-9. Epub 2010 Jul 22. PMID:20651120<ref>PMID:20651120</ref>
-[[3nkv]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NKV OCA].
-==Reference==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-<ref group="xtra">PMID:020651120</ref><references group="xtra"/><references/>
+</div>
+<div class="pdbe-citations 3nkv" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Ras-related protein Rab 3D structures|Ras-related protein Rab 3D structures]]
+== References ==
+<references/>
+__TOC__
+</StructureSection>
 [[Category: Homo sapiens]]
-[[Category: Blankenfeldt, W.]]
+[[Category: Large Structures]]
-[[Category: Goody, R S.]]
+[[Category: Blankenfeldt W]]
-[[Category: Itzen, A.]]
+[[Category: Goody RS]]
-[[Category: Mueller, M P.]]
+[[Category: Itzen A]]
-[[Category: Peters, H.]]
+[[Category: Mueller MP]]
-[[Category: Adenylylation]]
+[[Category: Peters H]]
-[[Category: Ampylation]]
-[[Category: Posttranslational modification]]
-[[Category: Protein transport]]
-[[Category: Rab1b]]
-[[Category: Vesicular transport]]