1oyb: Difference between revisions

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[[Image:1oyb.jpg|left|200px]]


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==OLD YELLOW ENZYME AT 2 ANGSTROMS RESOLUTION: OVERALL STRUCTURE, LIGAND BINDING AND COMPARISON WITH RELATED FLAVOPROTEINS==
The line below this paragraph, containing "STRUCTURE_1oyb", creates the "Structure Box" on the page.
<StructureSection load='1oyb' size='340' side='right'caption='[[1oyb]], [[Resolution|resolution]] 2.00&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'>[[1oyb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_pastorianus Saccharomyces pastorianus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OYB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1OYB 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&#8491;</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=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=HBA:P-HYDROXYBENZALDEHYDE'>HBA</scene></td></tr>
{{STRUCTURE_1oyb| PDB=1oyb |  SCENE= }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1oyb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1oyb OCA], [https://pdbe.org/1oyb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1oyb RCSB], [https://www.ebi.ac.uk/pdbsum/1oyb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1oyb ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/OYE1_SACPS OYE1_SACPS] Oxidizes beta-NADH, beta-NADPH, and alpha-NADPH.
== 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/oy/1oyb_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=1oyb ConSurf].
<div style="clear:both"></div>


'''OLD YELLOW ENZYME AT 2 ANGSTROMS RESOLUTION: OVERALL STRUCTURE, LIGAND BINDING AND COMPARISON WITH RELATED FLAVOPROTEINS'''
==See Also==
 
*[[NADPH dehydrogenase|NADPH dehydrogenase]]
 
__TOC__
==Overview==
</StructureSection>
BACKGROUND: Old yellow enzyme (OYE) was the first flavoenzyme purified, but its function is still unknown. Nevertheless, the NADPH oxidase activity, the flavin mononucleotide environment and the ligand-binding properties of OYE have been extensively studied by biochemical and spectroscopic approaches. Full interpretation of these data requires structural information. RESULTS: The crystal structures of oxidized and reduced OYE at 2 A resolution reveal an alpha/beta-barrel topology clearly related to trimethylamine dehydrogenase. Complexes of OYE with p-hydroxybenzaldehyde, beta-estradiol, and an NADPH analog show all three binding at a common site, stacked on the flavin. The putative NADPH binding mode is novel as it involves primary recognition of the nicotinamide mononucleotide portion. CONCLUSIONS: This work shows that the striking spectral changes seen upon phenol binding are due to close physical association of the flavin and phenolate. It also identifies the structural class of OYE and suggests that if NADPH is its true substrate, then OYE has adopted NADPH dependence during evolution.
[[Category: Large Structures]]
 
==About this Structure==
1OYB is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_pastorianus Saccharomyces pastorianus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OYB OCA].
 
==Reference==
Old yellow enzyme at 2 A resolution: overall structure, ligand binding, and comparison with related flavoproteins., Fox KM, Karplus PA, Structure. 1994 Nov 15;2(11):1089-105. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/7881908 7881908]
[[Category: NADPH dehydrogenase]]
[[Category: Saccharomyces pastorianus]]
[[Category: Saccharomyces pastorianus]]
[[Category: Single protein]]
[[Category: Fox KM]]
[[Category: Fox, K M.]]
[[Category: Karplus PA]]
[[Category: Karplus, P A.]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 04:25:51 2008''

Latest revision as of 11:03, 14 February 2024

OLD YELLOW ENZYME AT 2 ANGSTROMS RESOLUTION: OVERALL STRUCTURE, LIGAND BINDING AND COMPARISON WITH RELATED FLAVOPROTEINSOLD YELLOW ENZYME AT 2 ANGSTROMS RESOLUTION: OVERALL STRUCTURE, LIGAND BINDING AND COMPARISON WITH RELATED FLAVOPROTEINS

Structural highlights

1oyb is a 1 chain structure with sequence from Saccharomyces pastorianus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2Å
Ligands:,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

OYE1_SACPS Oxidizes beta-NADH, beta-NADPH, and alpha-NADPH.

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

See Also

1oyb, resolution 2.00Å

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