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4g1v

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==X-ray structure of yeast flavohemoglobin==
==X-ray structure of yeast flavohemoglobin==
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<StructureSection load='4g1v' size='340' side='right' caption='[[4g1v]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
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<StructureSection load='4g1v' size='340' side='right'caption='[[4g1v]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[4g1v]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_yjm789 Saccharomyces cerevisiae yjm789]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4G1V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4G1V FirstGlance]. <br>
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<table><tr><td colspan='2'>[[4g1v]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_YJM789 Saccharomyces cerevisiae YJM789]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4G1V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4G1V FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NO2:NITRITE+ION'>NO2</scene></td></tr>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.098&#8491;</td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1cqx|1cqx]], [[3ozu|3ozu]], [[3ozw|3ozw]], [[3ozv|3ozv]]</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NO2:NITRITE+ION'>NO2</scene></td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">YHB1, SCY_2125 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=307796 Saccharomyces cerevisiae YJM789])</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4g1v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4g1v OCA], [https://pdbe.org/4g1v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4g1v RCSB], [https://www.ebi.ac.uk/pdbsum/4g1v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4g1v ProSAT]</span></td></tr>
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<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=4g1v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4g1v OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4g1v RCSB], [http://www.ebi.ac.uk/pdbsum/4g1v PDBsum]</span></td></tr>
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</table>
</table>
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<div style="background-color:#fffaf0;">
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== Function ==
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== Publication Abstract from PubMed ==
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[https://www.uniprot.org/uniprot/A6ZUP2_YEAS7 A6ZUP2_YEAS7]
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Flavohemoglobins (flavoHbs) serve various microorganisms as the major protective enzymes against NO(*) - mediated toxicity. FlavoHbs dominantly function as a NO* dioxygenase (O(2) +NO--&gt; NO(3) (-) ) the required electron being shuttled from NAD(P)H via FAD to the heme iron. The X-ray structures of the flavoHb from Saccharomyces cerevisae presented in complex with an unknown small ligand (Yhb) and with econazole (Yhb(E) ) at 2.1 A and 3.0 A resolutions, respectively, reveal a high architectural accordance between prokaryotic and eukaryotic family members. The active site is characterized by a proximal heme side with a strictly conserved histidine, glutamate and tyrosine triad and a highly variable distal heme side with helix shifts up to 10 A mainly dependent on the presence/absence and size of the bound ligand. In yeast flavoHb, the small heme iron ligand adjusts a catalytically productive active site geometry that reliably suggests the NO and O(2) binding site. O(2) is activated by its ligation to an electron-rich heme iron and a hydrogen bond to Tyr29 and Gln53. High active site similarities between eukaryotic Yhb and bacterial single-domain globins argue for identical biochemical reactions. Binding of the bulky econazole implies a large-scale induced-fit process concerning, in particular, an outwards shift of helices B and E to increase the active site pocket. Yeast Yhb and Ralstonia eutropha flavoHb both structurally studied in complex with econazole indicate conformational differences between both the inhibitors and the polypeptide primarily caused by stable binding of a phospholipid to the latter and by distinct loop D structures. (c) 2012 The Authors Journal compilation (c) 2012 FEBS.
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Active site analysis of yeast flavohemoglobin based on its structure with a small ligand or econazole.,Hammi EE, Warkentin E, Demmer U, Marzouki NM, Ermler U, Baciou L FEBS J. 2012 Oct 25. doi: 10.1111/febs.12043. PMID:23095020<ref>PMID:23095020</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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==See Also==
==See Also==
*[[Hemoglobin 3D structures|Hemoglobin 3D structures]]
*[[Hemoglobin 3D structures|Hemoglobin 3D structures]]
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== References ==
 
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<references/>
 
__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Saccharomyces cerevisiae yjm789]]
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[[Category: Large Structures]]
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[[Category: Baciou, L]]
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[[Category: Saccharomyces cerevisiae YJM789]]
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[[Category: Demmer, U]]
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[[Category: Baciou L]]
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[[Category: Ermler, U]]
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[[Category: Demmer U]]
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[[Category: Hammi, E El]]
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[[Category: El Hammi E]]
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[[Category: Warkentin, E]]
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[[Category: Ermler U]]
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[[Category: Alpha/beta fold]]
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[[Category: Warkentin E]]
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[[Category: Antiparallel beta-barrel]]
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[[Category: Fad]]
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[[Category: Hem]]
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[[Category: Oxidoreductase]]
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[[Category: Resp]]
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[[Category: Three domains: globin fold]]
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Current revision

X-ray structure of yeast flavohemoglobin

PDB ID 4g1v

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