1obv: Difference between revisions

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-[[Image:1obv.png|left|200px]]
-<!--
+==Y94F flavodoxin from Anabaena==
-The line below this paragraph, containing "STRUCTURE_1obv", creates the "Structure Box" on the page.
+<StructureSection load='1obv' size='340' side='right'caption='[[1obv]], [[Resolution|resolution]] 2.10&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'>[[1obv]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Nostoc_sp._PCC_7119 Nostoc sp. PCC 7119]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OBV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1OBV 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]] 2.1&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-{{STRUCTURE_1obv|  PDB=1obv  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1obv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1obv OCA], [https://pdbe.org/1obv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1obv RCSB], [https://www.ebi.ac.uk/pdbsum/1obv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1obv ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/FLAV_NOSSO FLAV_NOSSO] Low-potential electron donor to a number of redox enzymes.
+== 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/ob/1obv_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=1obv ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Molecular recognition begins when two molecules approach and establish interactions of certain strength. The mechanisms of molecular recognition reactions between biological molecules are not well known, and few systems have been analyzed in detail. We investigate here the reaction between an apoprotein and its physiological cofactor (apoflavodoxin and flavin mononucleotide) that binds reversibly to form a non-covalent complex (flavodoxin) involved in electron transfer reactions. We have analyzed the fast binding reactions between the FMN cofactor (and shorter analogs) and wild type (and nine mutant apoflavodoxins where residues interacting with FMN in the final complex have been replaced). The x-ray structures of two such mutants are reported that show the mutations are well tolerated by the protein. From the calculated microscopic binding rate constants we have performed a Phi analysis of the transition state of complex formation that indicates that the binding starts by interaction of the isoalloxazine-fused rings in FMN with residues of its hydrophobic binding site. In contrast, the phosphate in FMN, known to contribute most to the affinity of the final holoflavodoxin complex, is not bound in the transition state complex. Both the effects of ionic strength and of phosphate concentration on the wild type complex rate constant agree with this scenario. As suggested previously by nmr data, it seems that the isoalloxazine-binding site may be substantially open in solution. Interestingly, although FMN is a charged molecule, electrostatic interactions seem not to play a role in directing the binding, unlike what has been reported for other biological complexes. The binding can thus be best described as a hydrophobic encounter at an open binding site.
-===Y94F FLAVODOXIN FROM ANABAENA===
+How FMN binds to anabaena apoflavodoxin: a hydrophobic encounter at an open binding site.,Lostao A, Daoudi F, Irun MP, Ramon A, Fernandez-Cabrera C, Romero A, Sancho J J Biol Chem. 2003 Jun 27;278(26):24053-61. Epub 2003 Apr 7. PMID:12682068<ref>PMID:12682068</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-<!--
+</div>
-The line below this paragraph, {{ABSTRACT_PUBMED_12682068}}, adds the Publication Abstract to the page
+<div class="pdbe-citations 1obv" style="background-color:#fffaf0;"></div>
-(as it appears on PubMed at http://www.pubmed.gov), where 12682068 is the PubMed ID number.
--->
-{{ABSTRACT_PUBMED_12682068}}
-==About this Structure==
-[[1obv]] is a 1 chain structure of [[Flavodoxin]] with sequence from [http://en.wikipedia.org/wiki/Anabaena_sp. Anabaena sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OBV OCA].
 ==See Also==
-*[[Flavodoxin]]
+*[[Flavodoxin 3D structures|Flavodoxin 3D structures]]
+== References ==
-==Reference==
+<references/>
-<ref group="xtra">PMID:12682068</ref><ref group="xtra">PMID:8599758</ref><references group="xtra"/>
+__TOC__
-[[Category: Anabaena sp.]]
+</StructureSection>
-[[Category: Fernandez-Cabrera, C.]]
+[[Category: Large Structures]]
-[[Category: Irun, M P.]]
+[[Category: Nostoc sp. PCC 7119]]
-[[Category: Ramon, A.]]
+[[Category: Fernandez-Cabrera C]]
-[[Category: Romero, A.]]
+[[Category: Irun MP]]
-[[Category: Sancho, J.]]
+[[Category: Ramon A]]
-[[Category: Electron transfer]]
+[[Category: Romero A]]
-[[Category: Electron transport]]
+[[Category: Sancho J]]
-[[Category: Flavoprotein]]