1ng4: Difference between revisions

From Proteopedia
Jump to navigationJump to search
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,328,572 edits
New page: left|200px<br /><applet load="1ng4" size="450" color="white" frame="true" align="right" spinBox="true" caption="1ng4, resolution 2.30Å" /> '''Structure of ThiO (g...
 
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,328,572 edits
No edit summary
 
(13 intermediate revisions by the same user not shown)
Line 1: Line 1:
[[Image:1ng4.jpg|left|200px]]<br /><applet load="1ng4" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1ng4, resolution 2.30&Aring;" />
'''Structure of ThiO (glycine oxidase) from Bacillus subtilis'''<br />


==Overview==
==Structure of ThiO (glycine oxidase) from Bacillus subtilis==
The thiO gene of Bacillus subtilis encodes an FAD-dependent glycine, oxidase. This enzyme is a homotetramer with a monomer molecular mass of 42, kDa. In this paper, we demonstrate that ThiO is required for the, biosynthesis of the thiazole moiety of thiamin pyrophosphate and describe, the structure of the enzyme with N-acetylglycine bound at the active site., The closest structural relatives of ThiO are sarcosine oxidase and d-amino, acid oxidase. The ThiO structure, as well as the observation that, N-cyclopropylglycine is a good substrate, supports a hydride transfer, mechanism for the enzyme. A mechanistic proposal for the role of ThiO in, thiazole biosynthesis is also described.
<StructureSection load='1ng4' size='340' side='right'caption='[[1ng4]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
 
== Structural highlights ==
==About this Structure==
<table><tr><td colspan='2'>[[1ng4]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NG4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1NG4 FirstGlance]. <br>
1NG4 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis] with PO4, FAD and PEO as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1NG4 OCA].  
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.3&#8491;</td></tr>
 
<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=PEO:HYDROGEN+PEROXIDE'>PEO</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
==Reference==
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ng4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ng4 OCA], [https://pdbe.org/1ng4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ng4 RCSB], [https://www.ebi.ac.uk/pdbsum/1ng4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ng4 ProSAT]</span></td></tr>
Structural and mechanistic studies on ThiO, a glycine oxidase essential for thiamin biosynthesis in Bacillus subtilis., Settembre EC, Dorrestein PC, Park JH, Augustine AM, Begley TP, Ealick SE, Biochemistry. 2003 Mar 18;42(10):2971-81. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12627963 12627963]
</table>
== Function ==
[https://www.uniprot.org/uniprot/GLYOX_BACSU GLYOX_BACSU] Catalyzes the FAD-dependent oxidative deamination of various amines and D-amino acids to yield the corresponding alpha-keto acids, ammonia/amine, and hydrogen peroxide. Oxidizes sarcosine (N-methylglycine), N-ethylglycine and glycine (PubMed:9827558, PubMed:11744710, PubMed:19864430). Can also oxidize the herbicide glyphosate (N-phosphonomethylglycine) (PubMed:19864430). Displays lower activities on D-alanine, D-valine, D-proline and D-methionine (PubMed:9827558, PubMed:11744710). Does not act on L-amino acids and other D-amino acids (PubMed:9827558). Is essential for thiamine biosynthesis since the oxidation of glycine catalyzed by ThiO generates the glycine imine intermediate (dehydroglycine) required for the biosynthesis of the thiazole ring of thiamine pyrophosphate (PubMed:12627963).<ref>PMID:11744710</ref> <ref>PMID:12627963</ref> <ref>PMID:19864430</ref> <ref>PMID:9827558</ref>
== 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/ng/1ng4_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=1ng4 ConSurf].
<div style="clear:both"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Bacillus subtilis]]
[[Category: Bacillus subtilis]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Augustine, A.]]
[[Category: Augustine A]]
[[Category: Begley, T.P.]]
[[Category: Begley TP]]
[[Category: Dorrestein, P.C.]]
[[Category: Dorrestein PC]]
[[Category: Ealick, S.E.]]
[[Category: Ealick SE]]
[[Category: Park, J.]]
[[Category: Park J]]
[[Category: Settembre, E.C.]]
[[Category: Settembre EC]]
[[Category: FAD]]
[[Category: PEO]]
[[Category: PO4]]
[[Category: flavoprotein]]
[[Category: oxidase]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 22:13:40 2007''
Retrieved from "https://proteopedia.org/1ng4"