3flb: Difference between revisions
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[[Image: | ==RifR - Type II thioesterase from Rifamycin NRPS/PKS biosynthetic pathway - Form 2== | ||
<StructureSection load='3flb' size='340' side='right' caption='[[3flb]], [[Resolution|resolution]] 1.80Å' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[3flb]] is a 1 chain structure with 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=3FLB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3FLB FirstGlance]. <br> | |||
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene></td></tr> | |||
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3fla|3fla]]</td></tr> | |||
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">rifR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=33910 Amycolatopsis mediterranei])</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=3flb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3flb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3flb RCSB], [http://www.ebi.ac.uk/pdbsum/3flb PDBsum]</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/3flb_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/chain_selection.php?pdb_ID=2ata 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. | |||
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®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
</div> | |||
== References == | |||
<references/> | |||
__TOC__ | |||
</StructureSection> | |||
== | |||
< | |||
[[Category: Amycolatopsis mediterranei]] | [[Category: Amycolatopsis mediterranei]] | ||
[[Category: Akey, D L | [[Category: Akey, D L]] | ||
[[Category: Smith, J L | [[Category: Smith, J L]] | ||
[[Category: Alpha-beta hydrolase thioesterase]] | [[Category: Alpha-beta hydrolase thioesterase]] | ||
[[Category: Hydrolase]] | [[Category: Hydrolase]] | ||
Revision as of 10:30, 3 December 2014
RifR - Type II thioesterase from Rifamycin NRPS/PKS biosynthetic pathway - Form 2
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