7vyp
From Proteopedia
(Difference between revisions)
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| - | '''Unreleased structure''' | ||
| - | The | + | ==The structure of GdmN complex with the natural tetrahedral intermediate, carbamoylated derivative, and AMP== |
| + | <StructureSection load='7vyp' size='340' side='right'caption='[[7vyp]], [[Resolution|resolution]] 2.88Å' scene=''> | ||
| + | == Structural highlights == | ||
| + | <table><tr><td colspan='2'>[[7vyp]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_hygroscopicus Streptomyces hygroscopicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7VYP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7VYP FirstGlance]. <br> | ||
| + | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=82Z:[(5S,6E,8S,9S,12R,13E,15E)-21-chloranyl-12,20-dimethoxy-6,8,16-trimethyl-5-oxidanyl-3,11-bis(oxidanylidene)-2-azabicyclo[16.3.1]docosa-1(21),6,13,15,18(22),19-hexaen-9-yl]+carbamate'>82Z</scene>, <scene name='pdbligand=8CW:[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl+[(~{S})-azanyl-[[(5~{S},6~{E},8~{S},9~{S},12~{R},13~{E},15~{E})-21-chloranyl-12,20-dimethoxy-6,8,16-trimethyl-5-oxidanyl-3,11-bis(oxidanylidene)-2-azabicyclo[16.3.1]docosa-1(21),6,13,15,18(22),19-hexaen-9-yl]oxy]-oxidanyl-methyl]+hydrogen+phosphate'>8CW</scene>, <scene name='pdbligand=AMP:ADENOSINE+MONOPHOSPHATE'>AMP</scene>, <scene name='pdbligand=CP:PHOSPHORIC+ACID+MONO(FORMAMIDE)ESTER'>CP</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</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=7vyp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7vyp OCA], [https://pdbe.org/7vyp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7vyp RCSB], [https://www.ebi.ac.uk/pdbsum/7vyp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7vyp ProSAT]</span></td></tr> | ||
| + | </table> | ||
| + | == Function == | ||
| + | [https://www.uniprot.org/uniprot/Q84G19_STRHY Q84G19_STRHY] | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | Iterative enzymes, which catalyze sequential reactions, have the potential to improve the atom economy and diversity of industrial enzymatic processes. Redesigning one-step enzymes to be iterative biocatalysts could further enhance these processes. Carbamoyltransferases (CTases) catalyze carbamoylation, an important modification for the bioactivity of many secondary metabolites with pharmaceutical applications. To generate an iterative CTase, we determine the X-ray structure of GdmN, a one-step CTase involved in ansamycin biosynthesis. GdmN forms a face-to-face homodimer through unusual C-terminal domains, a previously unknown functional form for CTases. Structural determination of GdmN complexed with multiple intermediates elucidates the carbamoylation process and identifies key binding residues within a spacious substrate-binding pocket. Further structural and computational analyses enable multi-site enzyme engineering, resulting in an iterative CTase with the capacity for successive 7-O and 3-O carbamoylations. Our findings reveal a subclade of the CTase family and exemplify the potential of protein engineering for generating iterative enzymes. | ||
| - | + | Endowing homodimeric carbamoyltransferase GdmN with iterative functions through structural characterization and mechanistic studies.,Wei J, Zhang X, Zhou Y, Cheng X, Lin Z, Tang M, Zheng J, Wang B, Kang Q, Bai L Nat Commun. 2022 Nov 3;13(1):6617. doi: 10.1038/s41467-022-34387-2. PMID:36329057<ref>PMID:36329057</ref> | |
| - | + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |
| - | [[Category: | + | </div> |
| - | [[Category: | + | <div class="pdbe-citations 7vyp" style="background-color:#fffaf0;"></div> |
| - | [[Category: Bai | + | == References == |
| - | [[Category: Wei | + | <references/> |
| - | [[Category: Zheng | + | __TOC__ |
| - | [[Category: Zhou | + | </StructureSection> |
| + | [[Category: Large Structures]] | ||
| + | [[Category: Streptomyces hygroscopicus]] | ||
| + | [[Category: Bai L]] | ||
| + | [[Category: Kang Q]] | ||
| + | [[Category: Wei J]] | ||
| + | [[Category: Zheng J]] | ||
| + | [[Category: Zhou J]] | ||
Revision as of 20:06, 16 November 2022
The structure of GdmN complex with the natural tetrahedral intermediate, carbamoylated derivative, and AMP
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