1mzu: Difference between revisions

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-[[Image:1mzu.jpg|left|200px]]
- {{Structure
+==Crystal Structure of the Photoactive Yellow Protein Domain from the Sensor Histidine Kinase Ppr from Rhodospirillum centenum==
-|PDB= 1mzu |SIZE=350|CAPTION= <scene name='initialview01'>1mzu</scene>, resolution 2.00&Aring;
+<StructureSection load='1mzu' size='340' side='right'caption='[[1mzu]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
-|SITE=
+== Structural highlights ==
-|LIGAND= <scene name='pdbligand=HC4:4'-HYDROXYCINNAMIC ACID'>HC4</scene>
+<table><tr><td colspan='2'>[[1mzu]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Rhodospirillum_centenum Rhodospirillum centenum]. The March 2015 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Phototropin''  by David Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2015_3 10.2210/rcsb_pdb/mom_2015_3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MZU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1MZU 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]] 2&#8491;</td></tr>
-|GENE=
+<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>
-}}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1mzu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mzu OCA], [https://pdbe.org/1mzu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1mzu RCSB], [https://www.ebi.ac.uk/pdbsum/1mzu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1mzu ProSAT]</span></td></tr>
+</table>
-'''Crystal Structure of the Photoactive Yellow Protein Domain from the Sensor Histidine Kinase Ppr from Rhodospirillum centenum'''
+== Function ==
+[https://www.uniprot.org/uniprot/Q9X2W8_RHOCE Q9X2W8_RHOCE]
+== Evolutionary Conservation ==
-==Overview==
+[[Image:Consurf_key_small.gif|200px|right]]
-Photoactive yellow protein (E-PYP) is a blue light photoreceptor, implicated in a negative phototactic response in Ectothiorhodospira halophila, that also serves as a model for the Per-Arnt-Sim superfamily of signaling molecules. Because no biological signaling partner for E-PYP has been identified, it has not been possible to correlate any of its photocycle intermediates with a relevant signaling state. However, the PYP domain (Ppr-PYP) from the sensor histidine kinase Ppr in Rhodospirillum centenum, which regulates the catalytic activity of Ppr by blue light absorption, may allow such issues to be addressed. Here we report the crystal structure of Ppr-PYP at 2 A resolution. This domain has the same absorption spectrum and similar photocycle kinetics as full length Ppr, but a blue-shifted absorbance and considerably slower photocycle than E-PYP. Although the overall fold of Ppr-PYP resembles that of E-PYP, a novel conformation of the beta 4-beta 5 loop results in inaccessibility of Met-100, thought to catalyze chromophore reisomerization, to the chromophore. This conformation also exposes a highly conserved molecular surface that could interact with downstream signaling partners. Other structural differences in the alpha 3-alpha 4 and beta 4-beta 5 loops are consistent with these regions playing significant roles in the control of photocycle dynamics and, by comparison to other sensory Per-Arnt-Sim domains, in signal transduction. Because of its direct linkage to a measurable biological output, Ppr-PYP serves as an excellent system for understanding how changes in photocycle dynamics affect signaling by PYPs.
+Check<jmol>
+  <jmolCheckbox>
-==About this Structure==
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/mz/1mzu_consurf.spt"</scriptWhenChecked>
-MZU is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Rhodospirillum_centenum Rhodospirillum centenum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MZU OCA].
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
-==Reference==
+  </jmolCheckbox>
-Crystal structure of a photoactive yellow protein from a sensor histidine kinase: conformational variability and signal transduction., Rajagopal S, Moffat K, Proc Natl Acad Sci U S A. 2003 Feb 18;100(4):1649-54. Epub 2003 Jan 31. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12563032 12563032]
+</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=1mzu ConSurf].
+<div style="clear:both"></div>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
+[[Category: Phototropin]]
+[[Category: RCSB PDB Molecule of the Month]]
 [[Category: Rhodospirillum centenum]]
-[[Category: Single protein]]
+[[Category: Moffat K]]
-[[Category: Moffat, K.]]
+[[Category: Rajagopal S]]
-[[Category: Rajagopal, S.]]
-[[Category: HC4]]
-[[Category: pa]]
-[[Category: photoactive yellow protein]]
-[[Category: ppr]]
-[[Category: pyp]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 12:50:17 2008''