3fla: Difference between revisions

From Proteopedia
Jump to navigationJump to search
← Older edit
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,328,572 edits
No edit summary
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,328,572 edits
No edit summary
 
(7 intermediate revisions by the same user not shown)
Line 1: Line 1:
{{Seed}}
[[Image:3fla.png|left|200px]]


<!--
==RifR - Type II thioesterase from Rifamycin NRPS/PKS biosynthetic pathway - Form 1==
The line below this paragraph, containing "STRUCTURE_3fla", creates the "Structure Box" on the page.
<StructureSection load='3fla' size='340' side='right'caption='[[3fla]], [[Resolution|resolution]] 1.80&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'>[[3fla]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Amycolatopsis_mediterranei Amycolatopsis mediterranei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FLA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3FLA 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]] 1.8&#8491;</td></tr>
-->
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
{{STRUCTURE_3fla|  PDB=3fla  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3fla FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fla OCA], [https://pdbe.org/3fla PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3fla RCSB], [https://www.ebi.ac.uk/pdbsum/3fla PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3fla ProSAT]</span></td></tr>
</table>
== 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/fl/3fla_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=3fla ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Two thioesterases are commonly found in natural product biosynthetic clusters, a type I thioesterase (TEI) which is responsible for removing the final product from the biosynthetic complex, and a type II thioesterase (TEII) which is believed to perform housekeeping functions such as removing aberrant units from carrier domains. We present the crystal structure and the kinetic analysis of RifR, a TEII from the hybrid NRPS/PKS rifamycin biosynthetic cluster of Amycolatopsis mediterranei. Steady-state kinetics show RifR has a preference for the hydrolysis of acyl units from the phosphopantetheinyl arm (Ppant) of the acyl carrier domain, over the hydrolysis of acyl units from the Ppant of acyl-CoAs as well as a modest preference for the decarboxylated substrate mimics acetyl-CoA and propionyl-CoA over malonyl-CoA and methylmalonyl-CoA. Multiple RifR conformations and structural similarities to other thioesterases suggest that movement of a helical lid controls access of substrates to the active site of RifR.


===RifR - Type II thioesterase from Rifamycin NRPS/PKS biosynthetic pathway - Form 1===
Structure and functional analysis of RifR, the type II thioesterase from the rifamycin biosynthetic pathway.,Claxton HB, Akey DL, Silver MK, Admiraal SJ, Smith JL J Biol Chem. 2008 Dec 22. PMID:19103602<ref>PMID:19103602</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
<!--
</div>
The line below this paragraph, {{ABSTRACT_PUBMED_19103602}}, adds the Publication Abstract to the page
<div class="pdbe-citations 3fla" style="background-color:#fffaf0;"></div>
(as it appears on PubMed at http://www.pubmed.gov), where 19103602 is the PubMed ID number.
== References ==
-->
<references/>
{{ABSTRACT_PUBMED_19103602}}
__TOC__
 
</StructureSection>
==About this Structure==
3FLA is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Amycolatopsis_mediterranei Amycolatopsis mediterranei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FLA OCA].
 
==Reference==
Structure and functional analysis of RifR, the type II thioesterase from the rifamycin biosynthetic pathway., Claxton HB, Akey DL, Silver MK, Admiraal SJ, Smith JL, J Biol Chem. 2008 Dec 22. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/19103602 19103602]
[[Category: Amycolatopsis mediterranei]]
[[Category: Amycolatopsis mediterranei]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Pdbx_ordinal=, <PDBx:audit_author.]]
[[Category: Akey DL]]
[[Category: Alpha-beta hydrolase thioesterase]]
[[Category: Smith JL]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Mar 11 20:20:31 2009''

Latest revision as of 01:49, 21 November 2024

RifR - Type II thioesterase from Rifamycin NRPS/PKS biosynthetic pathway - Form 1

3fla, resolution 1.80Å

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "https://proteopedia.org/index.php?title=3fla&oldid=4271824"