3ta4: Difference between revisions

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<StructureSection load='3ta4' size='340' side='right'caption='[[3ta4]], [[Resolution|resolution]] 2.35&Aring;' scene=''>
<StructureSection load='3ta4' size='340' side='right'caption='[[3ta4]], [[Resolution|resolution]] 2.35&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[3ta4]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Amycolatopsis_sp._atcc_39116 Amycolatopsis sp. atcc 39116]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3TA4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3TA4 FirstGlance]. <br>
<table><tr><td colspan='2'>[[3ta4]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Amycolatopsis_sp._ATCC_39116 Amycolatopsis sp. ATCC 39116]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3TA4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3TA4 FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=TO2:(1R,2S)-1-(3,4-DIMETHOXYPHENYL)-2-(2-METHOXYPHENOXY)PROPANE-1,3-DIOL'>TO2</scene></td></tr>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.35&#8491;</td></tr>
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3t9w|3t9w]]</div></td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=TO2:(1R,2S)-1-(3,4-DIMETHOXYPHENYL)-2-(2-METHOXYPHENOXY)PROPANE-1,3-DIOL'>TO2</scene></td></tr>
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Laccase Laccase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.10.3.2 1.10.3.2] </span></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=3ta4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ta4 OCA], [https://pdbe.org/3ta4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ta4 RCSB], [https://www.ebi.ac.uk/pdbsum/3ta4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ta4 ProSAT]</span></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=3ta4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ta4 OCA], [https://pdbe.org/3ta4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ta4 RCSB], [https://www.ebi.ac.uk/pdbsum/3ta4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ta4 ProSAT]</span></td></tr>
</table>
</table>
<div style="background-color:#fffaf0;">
== Function ==
== Publication Abstract from PubMed ==
[https://www.uniprot.org/uniprot/J9PBQ8_AMYS7 J9PBQ8_AMYS7]
Laccases (EC 1.10.3.2) are multicopper oxidases able to oxidize a range of substrates including phenols, aromatic amines and non-phenolic substrates. In order to investigate the involvement of the small Streptomyces laccases in lignin degradation, we generated acid-precipitable polymeric lignin (APPL) obtained in the presence of wild type Streptomyces coelicolor A3(2) (SCWT) and its laccase-less mutant (SCDeltaLAC) in presence of Miscanthus x giganteus lignocellulose. The results showed that strain SCDeltaLAC was inefficient in degrading lignin compared to strain SCWT, thereby supporting the importance of laccase for lignin degradation by Streptomyces coelicolor A3(2). We also studied the lignin degradation activity of laccases from Streptomyces coelicolor A3(2), Streptomyces lividans TK24, Streptomyces viridosporus T7A and Amycolatopsis sp. 75iv2 using both lignin model compounds and ethanosolv lignin. All four laccases degraded a phenolic model compound (LM-OH), but only able to oxidize a non-phenolic model compound (LM-OMe) in the presence of redox mediators. Their activities are highest at pH 8.0 with a low krel/Kapp for LM-OH, suggesting that the enzymes' natural substrates must be different in shape or chemical nature. Crystal structures of the laccases from Streptomyces viridosporus T7A (SVLAC) and Amycolatopsis sp. 75iv2 (AMLAC) were determined both with and without bound substrate. This is the first report of a crystal structure for any laccase bound to a non-phenolic beta-O-4 lignin model compound. An additional zinc metal binding site in SVLAC was also identified. The ability to oxidize/rearrange ethanosolv lignin further provides evidence for the utility of laccase activity for lignin degradation/modification.
 
The roles of small laccases from Streptomyces in lignin degradation.,Majumdar S, Lukk T, Solbiati JO, Bauer S, Nair SK, Cronan JE, Gerlt JA Biochemistry. 2014 May 28. PMID:24870309<ref>PMID:24870309</ref>
 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3ta4" style="background-color:#fffaf0;"></div>


==See Also==
==See Also==
*[[Laccase 3D structures|Laccase 3D structures]]
*[[Laccase 3D structures|Laccase 3D structures]]
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Amycolatopsis sp. atcc 39116]]
[[Category: Amycolatopsis sp. ATCC 39116]]
[[Category: Laccase]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Gerlt, J A]]
[[Category: Gerlt JA]]
[[Category: Lukk, T]]
[[Category: Lukk T]]
[[Category: Majumdar, S]]
[[Category: Majumdar S]]
[[Category: Nair, S K]]
[[Category: Nair SK]]
[[Category: 2-domain copper oxidase]]
[[Category: Oxidoreductase]]
[[Category: Secreted]]

Latest revision as of 10:06, 1 March 2024

Small laccase from Amycolatopsis sp. ATCC 39116 complexed with 1-(3,4-dimethoxyphenyl)-2-(2-methoxyphenoxy)-1,3-dihydroxypropane

3ta4, resolution 2.35Å

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