1yak

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (06:55, 23 August 2023) (edit) (undo)
 
(8 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:1yak.png|left|200px]]
 
-
<!--
+
==Complex of Bacillus subtilis TenA with 4-amino-2-methyl-5-hydroxymethylpyrimidine==
-
The line below this paragraph, containing "STRUCTURE_1yak", creates the "Structure Box" on the page.
+
<StructureSection load='1yak' size='340' side='right'caption='[[1yak]], [[Resolution|resolution]] 2.50&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'>[[1yak]] is a 4 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=1YAK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YAK 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]] 2.5&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HMH:4-AMINO-5-HYDROXYMETHYL-2-METHYLPYRIMIDINE'>HMH</scene></td></tr>
-
{{STRUCTURE_1yak| PDB=1yak | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1yak FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yak OCA], [https://pdbe.org/1yak PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1yak RCSB], [https://www.ebi.ac.uk/pdbsum/1yak PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1yak ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/TENA_BACSU TENA_BACSU] Stimulates the production of several extracellular degradative enzymes at the transcriptional level, probably by interfering with DegS and DegU, which are required for this effect. Is not an essential protein, but affects the sporulation frequency.
 +
== 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/ya/1yak_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=1yak ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Bacillus subtilis gene products TenA and TenI have been implicated in regulating the production of extracellular proteases, but their role in the regulation process remains unclear. The structural characterization of these proteins was undertaken to help provide insight into their function. We have determined the structure of TenA alone and in complex with 4-amino-2-methyl-5-hydroxymethylpyrimidine, and we demonstrate that TenA is a thiaminase II. The TenA structure suggests that the degradation of thiamin by TenA likely proceeds via the same addition-elimination mechanism described for thiaminase I. Three active-site residues, Asp44, Cys135, and Glu205, are likely involved in substrate binding and catalysis based on the enzyme/product complex structure and the conservation of these residues within TenA sequences. We have also determined the structure of TenI. Although TenI shows significant structural homology to thiamin phosphate synthase, it has no known enzymatic function. The structure suggests that TenI is unable to bind thiamin phosphate, largely resulting from the presence of leucine at position 119, while the corresponding residue in thiamin phosphate synthase is glycine.
-
===Complex of Bacillus subtilis TenA with 4-amino-2-methyl-5-hydroxymethylpyrimidine===
+
Structural characterization of the regulatory proteins TenA and TenI from Bacillus subtilis and identification of TenA as a thiaminase II.,Toms AV, Haas AL, Park JH, Begley TP, Ealick SE Biochemistry. 2005 Feb 22;44(7):2319-29. PMID:15709744<ref>PMID:15709744</ref>
 +
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 +
</div>
 +
<div class="pdbe-citations 1yak" style="background-color:#fffaf0;"></div>
-
<!--
+
==See Also==
-
The line below this paragraph, {{ABSTRACT_PUBMED_15709744}}, adds the Publication Abstract to the page
+
*[[Thiaminase|Thiaminase]]
-
(as it appears on PubMed at http://www.pubmed.gov), where 15709744 is the PubMed ID number.
+
*[[Transcriptional activator 3D structures|Transcriptional activator 3D structures]]
-
-->
+
== References ==
-
{{ABSTRACT_PUBMED_15709744}}
+
<references/>
-
 
+
__TOC__
-
==About this Structure==
+
</StructureSection>
-
1YAK is a 4 chains structure of sequences from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YAK OCA].
+
-
 
+
-
==Reference==
+
-
<ref group="xtra">PMID:15709744</ref><references group="xtra"/>
+
[[Category: Bacillus subtilis]]
[[Category: Bacillus subtilis]]
-
[[Category: Begley, T P.]]
+
[[Category: Large Structures]]
-
[[Category: Ealick, S E.]]
+
[[Category: Begley TP]]
-
[[Category: Haas, A L.]]
+
[[Category: Ealick SE]]
-
[[Category: Park, J H.]]
+
[[Category: Haas AL]]
-
[[Category: Toms, A V.]]
+
[[Category: Park J-H]]
-
[[Category: Thiaminase]]
+
[[Category: Toms AV]]
-
[[Category: Transcription]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 16:22:22 2009''
+

Current revision

Complex of Bacillus subtilis TenA with 4-amino-2-methyl-5-hydroxymethylpyrimidine

PDB ID 1yak

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Personal tools