1ts7: Difference between revisions

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

OCA

@@ Line 1: / Line 1: @@
-[[Image:1ts7.gif|left|200px]]<br /><applet load="1ts7" size="450" color="white" frame="true" align="right" spinBox="true"
-caption="1ts7, resolution 1.6&Aring;" />
-'''Structure of the pR cis wobble and pR E46Q intermediates from time-resolved Laue crystallography'''<br />
-==Overview==
+==Structure of the pR cis wobble and pR E46Q intermediates from time-resolved Laue crystallography==
-Determining 3D intermediate structures during the biological action of, proteins in real time under ambient conditions is essential for, understanding how proteins function. Here we use time-resolved Laue, crystallography to extract short-lived intermediate structures and thereby, unveil signal transduction in the blue light photoreceptor photoactive, yellow protein (PYP) from Halorhodospira halophila. By analyzing a, comprehensive set of Laue data during the PYP photocycle (forty-seven time, points from one nanosecond to one second), we track all atoms in PYP, during its photocycle and directly observe how absorption of a blue light, photon by its p-coumaric acid chromophore triggers a reversible, photocycle. We identify a complex chemical mechanism characterized by five, distinct structural intermediates. Structural changes at the chromophore, in the early, red-shifted intermediates are transduced to the exterior of, the protein in the late, blue-shifted intermediates through an initial, "volume-conserving" isomerization of the chromophore and the progressive, disruption of hydrogen bonds between the chromophore and its surrounding, binding pocket. These results yield a comprehensive view of the PYP, photocycle when seen in the light of previous biophysical studies on the, system.
+<StructureSection load='1ts7' size='340' side='right'caption='[[1ts7]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
+== Structural highlights ==
-==About this Structure==
+<table><tr><td colspan='2'>[[1ts7]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Halorhodospira_halophila Halorhodospira halophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TS7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1TS7 FirstGlance]. <br>
-TS7 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Halorhodospira_halophila Halorhodospira halophila] with HC4 as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1TS7 OCA].
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.6&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HC4:4-HYDROXYCINNAMIC+ACID'>HC4</scene></td></tr>
-==Reference==
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ts7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ts7 OCA], [https://pdbe.org/1ts7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ts7 RCSB], [https://www.ebi.ac.uk/pdbsum/1ts7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ts7 ProSAT]</span></td></tr>
-Visualizing reaction pathways in photoactive yellow protein from nanoseconds to seconds., Ihee H, Rajagopal S, Srajer V, Pahl R, Anderson S, Schmidt M, Schotte F, Anfinrud PA, Wulff M, Moffat K, Proc Natl Acad Sci U S A. 2005 May 17;102(20):7145-50. Epub 2005 May 3. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15870207 15870207]
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/PYP_HALHA PYP_HALHA] Photoactive blue light protein. Probably functions as a photoreceptor for a negative phototaxis response.
+== 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/ts/1ts7_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=1ts7 ConSurf].
+<div style="clear:both"></div>
+__TOC__
+</StructureSection>
 [[Category: Halorhodospira halophila]]
-[[Category: Single protein]]
+[[Category: Large Structures]]
-[[Category: Anderson, S.]]
+[[Category: Anderson S]]
-[[Category: Anfinrud, P.A.]]
+[[Category: Anfinrud PA]]
-[[Category: Ihee, H.]]
+[[Category: Ihee H]]
-[[Category: Moffat, K.]]
+[[Category: Moffat K]]
-[[Category: Pahl, R.]]
+[[Category: Pahl R]]
-[[Category: Rajagopal, S.]]
+[[Category: Rajagopal S]]
-[[Category: Schmidt, M.]]
+[[Category: Schmidt M]]
-[[Category: Schotte, F.]]
+[[Category: Schotte F]]
-[[Category: Srajer, V.]]
+[[Category: Srajer V]]
-[[Category: Wulff, M.]]
+[[Category: Wulff M]]
-[[Category: HC4]]
-[[Category: photoreceptor]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 03:33:16 2007''