View source for 5bkc


==Crystal structure of AAD-1 in complex with (R)-diclofop, Mn(II), and 2-oxoglutarate==
<StructureSection load='5bkc' size='340' side='right'caption='[[5bkc]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[5bkc]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Delftia_acidovorans Delftia acidovorans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5BKC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5BKC FirstGlance]. <br>
</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=AKG:2-OXOGLUTARIC+ACID'>AKG</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=O0D:(2R)-2-{4-[(3,5-dichloropyridin-2-yl)oxy]phenoxy}propanoic+acid'>O0D</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5bkc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5bkc OCA], [https://pdbe.org/5bkc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5bkc RCSB], [https://www.ebi.ac.uk/pdbsum/5bkc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5bkc ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/RDPA_DELAC RDPA_DELAC] Involved in the degradation of the phenoxypropionate herbicides. Catalyzes the enantiospecific cleavage of the ether bond in the herbicid R-dichlorprop ((R)-2-(2,4-dichlorophenoxy)propionate)(R-2,4-DP) and R-mecoprop ((R)-2-(4-chloro-2-methylphenoxy)propionate)(R-2,4-MCPP). It can also accept (RS)-2-(2,4,5-trichlorophenoxy)propionate, (RS)-2-(4-chlorophenoxy)propionate, (RS)-2-(m-chlorophenoxy)propionate, however it can only accept 2-oxoglutarate as oxygen acceptor.<ref>PMID:12501996</ref> <ref>PMID:12501996</ref> 
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The synthetic auxin 2,4-dichlorophenoxyacetic acid (2,4-D) is an active ingredient of thousands of commercial herbicides. Multiple species of bacteria degrade 2,4-D via a pathway initiated by the Fe(II) and alpha-ketoglutarate (Fe/alphaKG)-dependent aryloxyalkanoate dioxygenases (AADs). Recently, genes encoding 2 AADs have been deployed commercially in herbicide-tolerant crops. Some AADs can also inactivate chiral phenoxypropionate and aryloxyphenoxypropionate (AOPP) herbicides, albeit with varying substrate enantioselectivities. Certain AAD enzymes, such as AAD-1, have expanded utility in weed control systems by enabling the use of diverse modes of action with a single trait. Here, we report 1) the use of a genomic context-based approach to identify 59 additional members of the AAD class, 2) the biochemical characterization of AAD-2 from Bradyrhizobium diazoefficiens USDA 110 as a catalyst to degrade (S)-stereoisomers of chiral synthetic auxins and AOPP herbicides, 3) spectroscopic data that demonstrate the canonical ferryl complex in the AAD-1 reaction, and 4) crystal structures of representatives of the AAD class. Structures of AAD-1, an (R)-enantiomer substrate-specific enzyme, in complexes with a phenoxypropionate synthetic auxin or with AOPP herbicides and of AAD-2, which has the opposite (S)-enantiomeric substrate specificity, reveal the structural basis for stereoselectivity and provide insights into a common catalytic mechanism.

Molecular basis for enantioselective herbicide degradation imparted by aryloxyalkanoate dioxygenases in transgenic plants.,Chekan JR, Ongpipattanakul C, Wright TR, Zhang B, Bollinger JM Jr, Rajakovich LJ, Krebs C, Cicchillo RM, Nair SK Proc Natl Acad Sci U S A. 2019 Jun 17. pii: 1900711116. doi:, 10.1073/pnas.1900711116. PMID:31209034<ref>PMID:31209034</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 5bkc" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Delftia acidovorans]]
[[Category: Large Structures]]
[[Category: Chekan JR]]
[[Category: Nair SK]]