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.


1s8f

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (06:14, 23 August 2023) (edit) (undo)
 
(8 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:1s8f.png|left|200px]]
 
-
<!--
+
==Crystal structure of Rab9 complexed to GDP reveals a dimer with an active conformation of switch II==
-
The line below this paragraph, containing "STRUCTURE_1s8f", creates the "Structure Box" on the page.
+
<StructureSection load='1s8f' size='340' side='right'caption='[[1s8f]], [[Resolution|resolution]] 1.77&Aring;' scene=''>
-
You may change the PDB parameter (which sets the PDB file loaded into the applet)
+
== Structural highlights ==
-
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+
<table><tr><td colspan='2'>[[1s8f]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Canis_lupus_familiaris Canis lupus familiaris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S8F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1S8F FirstGlance]. <br>
-
or leave the SCENE parameter empty for the default display.
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.77&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BEZ:BENZOIC+ACID'>BEZ</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SR:STRONTIUM+ION'>SR</scene></td></tr>
-
{{STRUCTURE_1s8f| PDB=1s8f | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1s8f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s8f OCA], [https://pdbe.org/1s8f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1s8f RCSB], [https://www.ebi.ac.uk/pdbsum/1s8f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1s8f ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/RAB9A_CANLF RAB9A_CANLF] Involved in the transport of proteins between the endosomes and the trans-Golgi network (PubMed:8440258). Involved in the recruitment of SGSM2 to melanosomes and is required for the proper trafficking of melanogenic enzymes TYR, TYRP1 and DCT/TYRP2 to melanosomes in melanocytes (By similarity).[UniProtKB:Q9R0M6]<ref>PMID:8440258</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/s8/1s8f_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=1s8f ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
The small GTPase Rab9 is an essential regulator of vesicular transport from the late endosome to the trans-Golgi network, as monitored by the redirection of the mannose-6-phosphate receptors. The crystal structure of Rab9 complexed to GDP, Mg(2+), and Sr(2+) reveals a unique dimer formed by an intermolecular beta-sheet that buries the switch I regions. Surface area and shape complementarity calculations suggest that Rab9 dimers can form an inactive, membrane-bound pool of Rab9 . GDP that is independent of GDI. Mg(2+)-bound Rab9 represents an inactive state, but Sr(2+)-bound Rab9 . GDP displays activated switch region conformations, mimicking those of the GTP state. A hydrophobic tetrad is formed resembling an effector-discriminating epitope found only in GTP-bound Rab proteins.
-
===Crystal structure of Rab9 complexed to GDP reveals a dimer with an active conformation of switch II===
+
Crystal structure of Rab9 complexed to GDP reveals a dimer with an active conformation of switch II.,Wittmann JG, Rudolph MG FEBS Lett. 2004 Jun 18;568(1-3):23-9. PMID:15196914<ref>PMID:15196914</ref>
 +
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 +
</div>
 +
<div class="pdbe-citations 1s8f" style="background-color:#fffaf0;"></div>
-
<!--
+
==See Also==
-
The line below this paragraph, {{ABSTRACT_PUBMED_15196914}}, adds the Publication Abstract to the page
+
*[[Ras-related protein Rab 3D structures|Ras-related protein Rab 3D structures]]
-
(as it appears on PubMed at http://www.pubmed.gov), where 15196914 is the PubMed ID number.
+
== References ==
-
-->
+
<references/>
-
{{ABSTRACT_PUBMED_15196914}}
+
__TOC__
-
 
+
</StructureSection>
-
==About this Structure==
+
-
1S8F is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Canis_lupus_familiaris Canis lupus familiaris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S8F OCA].
+
-
 
+
-
==Reference==
+
-
<ref group="xtra">PMID:15196914</ref><references group="xtra"/>
+
[[Category: Canis lupus familiaris]]
[[Category: Canis lupus familiaris]]
-
[[Category: Rudolph, M G.]]
+
[[Category: Large Structures]]
-
[[Category: Wittmann, J G.]]
+
[[Category: Rudolph MG]]
-
[[Category: Hemihedral twinning]]
+
[[Category: Wittmann JG]]
-
[[Category: Intracellular transport]]
+
-
[[Category: Vesicular trafficking]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 13:06:07 2009''
+

Current revision

Crystal structure of Rab9 complexed to GDP reveals a dimer with an active conformation of switch II

PDB ID 1s8f

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1s8f"
Personal tools