2d2e: Difference between revisions

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-[[Image:2d2e.gif|left|200px]]
-<!--
+==Crystal structure of atypical cytoplasmic ABC-ATPase SufC from Thermus thermophilus HB8==
-The line below this paragraph, containing "STRUCTURE_2d2e", creates the "Structure Box" on the page.
+<StructureSection load='2d2e' size='340' side='right'caption='[[2d2e]], [[Resolution|resolution]] 1.70&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'>[[2d2e]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB8 Thermus thermophilus HB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D2E OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2D2E 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]] 1.7&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-{{STRUCTURE_2d2e|  PDB=2d2e  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2d2e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2d2e OCA], [https://pdbe.org/2d2e PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2d2e RCSB], [https://www.ebi.ac.uk/pdbsum/2d2e PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2d2e ProSAT], [https://www.topsan.org/Proteins/RSGI/2d2e TOPSAN]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q5SH92_THET8 Q5SH92_THET8]
+== 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/d2/2d2e_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=2d2e ConSurf].
+<div style="clear:both"></div>
-'''Crystal structure of atypical cytoplasmic ABC-ATPase SufC from Thermus thermophilus HB8'''
+==See Also==
+*[[Heat Shock Protein structures|Heat Shock Protein structures]]
+__TOC__
-==Overview==
+</StructureSection>
-SufC, a cytoplasmic ABC-ATPase, is one of the most conserved Suf proteins. SufC forms a stable complex with SufB and SufD, and the SufBCD complex interacts with other Suf proteins in the Fe-S cluster assembly. We have determined the crystal structure of SufC from Thermus thermophilus HB8 in nucleotide-free and ADP-Mg-bound states at 1.7A and 1.9A resolution, respectively. The overall architecture of the SufC structure is similar to other ABC ATPases structures, but there are several specific motifs in SufC. Three residues following the end of the Walker B motif form a novel 3(10) helix which is not observed in other ABC ATPases. Due to the novel 3(10) helix, a conserved glutamate residue involved in ATP hydrolysis is flipped out. Although this unusual conformation is unfavorable for ATP hydrolysis, salt-bridges formed by conserved residues and a strong hydrogen-bonding network around the novel 3(10) helix suggest that the novel 3(10) helix of SufC is a rigid conserved motif. Compared to other ABC-ATPase structures, a significant displacement occurs at a linker region between the ABC alpha/beta domain and the alpha-helical domain. The linker conformation is stabilized by a hydrophobic interaction between conserved residues around the Q loop. The molecular surfaces of SufC and the C-terminal helices of SufD (PDB code: 1VH4) suggest that the unusual linker conformation conserved among SufC proteins is probably suitable for interacting with SufB and SufD.
+[[Category: Large Structures]]
+[[Category: Thermus thermophilus HB8]]
-==About this Structure==
+[[Category: Kita A]]
-D2E is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D2E OCA].
+[[Category: Miki K]]
+[[Category: Watanabe S]]
-==Reference==
-Crystal structure of atypical cytoplasmic ABC-ATPase SufC from Thermus thermophilus HB8., Watanabe S, Kita A, Miki K, J Mol Biol. 2005 Nov 11;353(5):1043-54. Epub 2005 Sep 23. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16216272 16216272]
-[[Category: Single protein]]
-[[Category: Thermus thermophilus]]
-[[Category: Kita, A.]]
-[[Category: Miki, K.]]
-[[Category: RSGI, RIKEN Structural Genomics/Proteomics Initiative.]]
-[[Category: Watanabe, S.]]
-[[Category: 310-helix]]
-[[Category: Abc-atpase]]
-[[Category: Riken structural genomics/proteomics initiative]]
-[[Category: Rsgi]]
-[[Category: Structural genomic]]
-[[Category: Suf protein]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 23:34:30 2008''