1ylb: 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: @@
-{{Seed}}
-[[Image:1ylb.png|left|200px]]
-<!--
+==NMR solution structure of the reduced spinach plastocyanin==
-The line below this paragraph, containing "STRUCTURE_1ylb", creates the "Structure Box" on the page.
+<StructureSection load='1ylb' size='340' side='right'caption='[[1ylb]]' 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'>[[1ylb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Spinacia_oleracea Spinacia oleracea]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YLB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YLB 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">Solution NMR</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CU1:COPPER+(I)+ION'>CU1</scene></td></tr>
-{{STRUCTURE_1ylb|  PDB=1ylb  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ylb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ylb OCA], [https://pdbe.org/1ylb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ylb RCSB], [https://www.ebi.ac.uk/pdbsum/1ylb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ylb ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/PLAS_SPIOL PLAS_SPIOL] Participates in electron transfer between P700 and the cytochrome b6-f complex in photosystem I.
+== 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/yl/1ylb_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=1ylb ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+In oxygenic photosynthesis, plastocyanin shuttles electrons between the membrane-bound complexes cytochrome b6f and photosystem I. The homologous complex between cytochrome f and plastocyanin, both from spinach, is the object of this study. The solution structure of the reduced spinach plastocyanin was determined using high field NMR spectroscopy, whereas the model structure of oxidized cytochrome f was obtained by homology modeling calculations and molecular dynamics. The model structure of the intermolecular complex was calculated using the program AUTODOCK, taking into account biological information obtained from mutagenesis experiments. The best electron transfer pathway from the heme group of cytochrome f to the copper ion of plastocyanin was calculated using the program HARLEM, obtaining a coupling decay value of 1.8 x 10(-4). Possible mechanisms of interaction and electron transfer between plastocyanin and cytochrome f were discussed considering the possible formation of a supercomplex that associates one cytochrome b6f, one photosystem I, and one plastocyanin.
-===NMR solution structure of the reduced spinach plastocyanin===
+Structure of the intermolecular complex between plastocyanin and cytochrome f from spinach.,Musiani F, Dikiy A, Semenov AY, Ciurli S J Biol Chem. 2005 May 13;280(19):18833-41. Epub 2005 Feb 3. PMID:15691836<ref>PMID:15691836</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1ylb" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_15691836}}, adds the Publication Abstract to the page
+*[[Plastocyanin 3D structures|Plastocyanin 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 15691836 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_15691836}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-YLB is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Spinacia_oleracea Spinacia oleracea]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YLB OCA].
-==Reference==
-Structure of the intermolecular complex between plastocyanin and cytochrome f from spinach., Musiani F, Dikiy A, Semenov AY, Ciurli S, J Biol Chem. 2005 May 13;280(19):18833-41. Epub 2005 Feb 3. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15691836 15691836]
-Crystal structure of spinach plastocyanin at 1.7 A resolution., Xue Y, Okvist M, Hansson O, Young S, Protein Sci. 1998 Oct;7(10):2099-105. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/9792096 9792096]
-[[Category: Single protein]]
 [[Category: Spinacia oleracea]]
-[[Category: Ciurli, S.]]
+[[Category: Ciurli S]]
-[[Category: Dikiy, A.]]
+[[Category: Dikiy A]]
-[[Category: Musiani, F.]]
+[[Category: Musiani F]]
-[[Category: Semenov, A Y.]]
+[[Category: Semenov AY]]
-[[Category: Blue-copper protein]]
-[[Category: Electron-transfer]]
-[[Category: Photosynthesis]]
-[[Category: Plastocyanin]]
-[[Category: Spinach]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 14:45:19 2008''