1obv: Difference between revisions
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==Y94F | |||
==Y94F flavodoxin from Anabaena== | |||
<StructureSection load='1obv' size='340' side='right' caption='[[1obv]], [[Resolution|resolution]] 2.10Å' scene=''> | <StructureSection load='1obv' size='340' side='right' caption='[[1obv]], [[Resolution|resolution]] 2.10Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr> | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr> | ||
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1dx9|1dx9]], [[1flv|1flv]], [[1ftg|1ftg]], [[1obo|1obo]], [[1qhe|1qhe]], [[1rcf|1rcf]]</td></tr> | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1dx9|1dx9]], [[1flv|1flv]], [[1ftg|1ftg]], [[1obo|1obo]], [[1qhe|1qhe]], [[1rcf|1rcf]]</td></tr> | ||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1obv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1obv OCA], [http://pdbe.org/1obv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1obv RCSB], [http://www.ebi.ac.uk/pdbsum/1obv PDBsum]</span></td></tr> | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1obv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1obv OCA], [http://pdbe.org/1obv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1obv RCSB], [http://www.ebi.ac.uk/pdbsum/1obv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1obv ProSAT]</span></td></tr> | ||
</table> | </table> | ||
== Evolutionary Conservation == | == Evolutionary Conservation == | ||
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Check<jmol> | Check<jmol> | ||
<jmolCheckbox> | <jmolCheckbox> | ||
<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ob/1obv_consurf.spt"</scriptWhenChecked> | <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> | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> | ||
<text>to colour the structure by Evolutionary Conservation</text> | <text>to colour the structure by Evolutionary Conservation</text> | ||
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</div> | </div> | ||
<div class="pdbe-citations 1obv" style="background-color:#fffaf0;"></div> | <div class="pdbe-citations 1obv" style="background-color:#fffaf0;"></div> | ||
== References == | == References == | ||
<references/> | <references/> | ||
Revision as of 10:06, 7 February 2018
Y94F flavodoxin from AnabaenaY94F flavodoxin from Anabaena
Structural highlights
Evolutionary Conservation Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf. Publication Abstract from PubMedMolecular 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. 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[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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