1svi: Difference between revisions

← Older edit

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

OCA

@@ Line 1: / Line 1: @@
-[[Image:1svi.jpg|left|200px]]
- {{Structure
+==Crystal Structure of the GTP-binding protein YsxC complexed with GDP==
-|PDB= 1svi |SIZE=350|CAPTION= <scene name='initialview01'>1svi</scene>, resolution 1.95&Aring;
+<StructureSection load='1svi' size='340' side='right'caption='[[1svi]], [[Resolution|resolution]] 1.95&Aring;' scene=''>
-|SITE=
+== Structural highlights ==
-|LIGAND= <scene name='pdbligand=GDP:GUANOSINE-5&#39;-DIPHOSPHATE'>GDP</scene>
+<table><tr><td colspan='2'>[[1svi]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1SVI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1SVI FirstGlance]. <br>
-|ACTIVITY=
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.95&#8491;</td></tr>
-|GENE= YsxC, ENGB, BSU28190 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 Bacillus subtilis])
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</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=1svi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1svi OCA], [https://pdbe.org/1svi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1svi RCSB], [https://www.ebi.ac.uk/pdbsum/1svi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1svi ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/ENGB_BACSU ENGB_BACSU] Necessary for normal cell division and for the maintenance of normal septation (By similarity).[HAMAP-Rule:MF_00321]  Binds GTP and GDP.[HAMAP-Rule:MF_00321]
+== 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/sv/1svi_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=1svi ConSurf].
+<div style="clear:both"></div>
-'''Crystal Structure of the GTP-binding protein YsxC complexed with GDP'''
+==See Also==
+*[[GTP-binding protein 3D structures|GTP-binding protein 3D structures]]
+__TOC__
-==Overview==
+</StructureSection>
-Genetic analysis has suggested that the product of the Bacillus subtilis ysxC gene is essential for survival of the microorganism and hence may represent a target for the development of a novel anti-infective agent. B.subtilis YsxC is a member of the translation factor related class of GTPases and its crystal structure has been determined in an apo form and in complex with GDP and GMPPNP/Mg2+. Analysis of these structures has allowed us to examine the conformational changes that occur during the process of nucleotide binding and GTP hydrolysis. These structural changes particularly affect parts of the switch I and switch II region of YsxC, which become ordered and disordered, respectively in the "closed" or "on" GTP-bound state and disordered and ordered, respectively, in the "open" or "off" GDP-bound conformation. Finally, the binding of the magnesium cation results in subtle shifts of residues in the G3 region, at the start of switch II, which serve to optimize the interaction with a key aspartic acid residue. The structural flexibility observed in YsxC is likely to contribute to the role of the protein, possibly allowing transduction of an essential intracellular signal, which may be mediated via interactions with a conserved patch of surface-exposed, basic residues that lies adjacent to the GTP-binding site.
-==About this Structure==
-SVI is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1SVI OCA].
-==Reference==
-Analysis of the open and closed conformations of the GTP-binding protein YsxC from Bacillus subtilis., Ruzheinikov SN, Das SK, Sedelnikova SE, Baker PJ, Artymiuk PJ, Garcia-Lara J, Foster SJ, Rice DW, J Mol Biol. 2004 May 28;339(2):265-78. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15136032 15136032]
 [[Category: Bacillus subtilis]]
-[[Category: Single protein]]
+[[Category: Large Structures]]
-[[Category: Artymiuk, P J.]]
+[[Category: Artymiuk PJ]]
-[[Category: Baker, P J.]]
+[[Category: Baker PJ]]
-[[Category: Das, S K.]]
+[[Category: Das SK]]
-[[Category: Foster, S J.]]
+[[Category: Foster SJ]]
-[[Category: Garcia-Lara, J.]]
+[[Category: Garcia-Lara J]]
-[[Category: Rice, D W.]]
+[[Category: Rice DW]]
-[[Category: Ruzheinikov, S N.]]
+[[Category: Ruzheinikov SN]]
-[[Category: Sedelnikova, S E.]]
+[[Category: Sedelnikova SE]]
-[[Category: GDP]]
-[[Category: engb]]
-[[Category: gdp]]
-[[Category: gtp-binding protein]]
-[[Category: gtpase]]
-[[Category: ysxc]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 23 13:39:34 2008''