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4g1b

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Revision as of 20:19, 19 October 2022

X-ray structure of yeast flavohemoglobin in complex with econazole

Structural highlights

4g1b is a 4 chain structure with sequence from Saccharomyces cerevisiae YJM789. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	, ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

A6ZUP2_YEAS7

Publication Abstract from PubMed

Flavohemoglobins (flavoHbs) serve various microorganisms as the major protective enzymes against NO(*) - mediated toxicity. FlavoHbs dominantly function as a NO* dioxygenase (O(2) +NO--> 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.

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^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Hammi EE, Warkentin E, Demmer U, Marzouki NM, Ermler U, Baciou L. Active site analysis of yeast flavohemoglobin based on its structure with a small ligand or econazole. FEBS J. 2012 Oct 25. doi: 10.1111/febs.12043. PMID:23095020 doi:http://dx.doi.org/10.1111/febs.12043

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 See Also
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/4g1b"

@@ Line 1: / Line 1: @@
 ==X-ray structure of yeast flavohemoglobin in complex with econazole==
-<StructureSection load='4g1b' size='340' side='right' caption='[[4g1b]], [[Resolution|resolution]] 3.00&Aring;' scene=''>
+<StructureSection load='4g1b' size='340' side='right'caption='[[4g1b]], [[Resolution|resolution]] 3.00&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4g1b]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4G1B OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4G1B FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4g1b]] is a 4 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=4G1B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4G1B FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ECN:1-[(2S)-2-[(4-CHLOROBENZYL)OXY]-2-(2,4-DICHLOROPHENYL)ETHYL]-1H-IMIDAZOLE'>ECN</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ECN:1-[(2S)-2-[(4-CHLOROBENZYL)OXY]-2-(2,4-DICHLOROPHENYL)ETHYL]-1H-IMIDAZOLE'>ECN</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene></td></tr>
-<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 Baker's yeast])</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=4g1b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4g1b OCA], [https://pdbe.org/4g1b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4g1b RCSB], [https://www.ebi.ac.uk/pdbsum/4g1b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4g1b ProSAT]</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=4g1b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4g1b OCA], [http://pdbe.org/4g1b PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4g1b RCSB], [http://www.ebi.ac.uk/pdbsum/4g1b PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4g1b ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/A6ZUP2_YEAS7 A6ZUP2_YEAS7]
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 24: / Line 25: @@
 __TOC__
 </StructureSection>
-[[Category: Baker's yeast]]
+[[Category: Large Structures]]
-[[Category: Baciou, L]]
+[[Category: Saccharomyces cerevisiae YJM789]]
-[[Category: Demmer, U]]
+[[Category: Baciou L]]
-[[Category: Ermler, U]]
+[[Category: Demmer U]]
-[[Category: Hammi, E El]]
+[[Category: El Hammi E]]
-[[Category: Warkentin, E]]
+[[Category: Ermler U]]
-[[Category: Alpha/beta fold]]
+[[Category: Warkentin E]]
-[[Category: Antiparallel beta-barrel]]
-[[Category: Econazole]]
-[[Category: Fad]]
-[[Category: Hem]]
-[[Category: Oxidoreductase]]
-[[Category: Resp]]
-[[Category: Three domains: globin fold]]

4g1b

From Proteopedia

Revision as of 20:19, 19 October 2022

X-ray structure of yeast flavohemoglobin in complex with econazole

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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