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5dpd

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==The structure of PKMT1 from Rickettsia prowazekii in complex with AdoMet==
==The structure of PKMT1 from Rickettsia prowazekii in complex with AdoMet==
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<StructureSection load='5dpd' size='340' side='right' caption='[[5dpd]], [[Resolution|resolution]] 3.00&Aring;' scene=''>
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<StructureSection load='5dpd' size='340' side='right'caption='[[5dpd]], [[Resolution|resolution]] 3.00&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[5dpd]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DPD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5DPD FirstGlance]. <br>
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<table><tr><td colspan='2'>[[5dpd]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Rickettsia_prowazekii_str._Madrid_E Rickettsia prowazekii str. Madrid E]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DPD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5DPD FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene></td></tr>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3&#8491;</td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5dpl|5dpl]], [[5doo|5doo]], [[5do0|5do0]], [[5dnk|5dnk]]</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene></td></tr>
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<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=5dpd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5dpd OCA], [http://pdbe.org/5dpd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5dpd RCSB], [http://www.ebi.ac.uk/pdbsum/5dpd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5dpd ProSAT]</span></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5dpd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5dpd OCA], [https://pdbe.org/5dpd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5dpd RCSB], [https://www.ebi.ac.uk/pdbsum/5dpd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5dpd ProSAT]</span></td></tr>
</table>
</table>
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<div style="background-color:#fffaf0;">
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== Function ==
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== Publication Abstract from PubMed ==
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[https://www.uniprot.org/uniprot/Y789_RICPR Y789_RICPR]
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Rickettsia belong to a family of Gram-negative obligate-intracellular infectious bacteria that are the causative agents of typhus and spotted fever. Outer membrane protein B (OmpB) occurs in all rickettsial species, serves as a protective envelope, mediates host cell adhesion and invasion, and is a major immunodominant antigen. OmpBs from virulent strains contain multiple trimethylated lysine residues, while avirulent strain contains mainly monomethyllysine. Two protein lysine methyltransferases that catalyze methylation of recombinant OmpB at multiple sites with varying sequences have been identified and overexpressed. PKMT1 catalyzes predominantly monomethylation, while PKMT2 catalyzes mainly trimethylation. Rickettsial PKMT1 and PKMT2 are unusual in that their primary substrate appears to be limited to OmpB and both are capable of methylating multiple lysyl residues with broad sequence specificity. Here we report the crystal structures of PKMT1 from R. prowazekii and PKMT2 from R. typhi, both the apo-form and in complex with its cofactor AdoMet or AdoHcy. The structure of PKMT1 in complex with AdoHcy is solved to a resolution of 1.9 A. Both enzymes are dimeric, with each monomer containing an AdoMet binding domain with a core Rossmann fold, a dimerization domain, a middle domain, a C-terminal domain, and a centrally located open cavity. Based on the crystal structures, residues involved in catalysis, cofactor binding and substrate interactions were examined using site-directed mutagenesis followed by steady-state kinetic analysis to ascertain their catalytic functions in solution. Together, our data reveal new structural and mechanistic insights on how rickettsial methyltransferases catalyze OmpB methylation.
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Structural Insights into Substrate Recognition and Catalysis in OmpB by Protein Lysine Methyltransferases from Rickettsia.,Abeykoon AH, Noinaj N, Choi BE, Wise L, He Y, Chao CC, Wang G, Gucek M, Ching WM, Chock PB, Buchanan SK, Yang DC J Biol Chem. 2016 Jul 29. pii: jbc.M116.723460. PMID:27474738<ref>PMID:27474738</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 5dpd" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Abeykoon, A]]
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[[Category: Large Structures]]
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[[Category: Buchanan, S K]]
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[[Category: Rickettsia prowazekii str. Madrid E]]
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[[Category: He, Y]]
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[[Category: Abeykoon A]]
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[[Category: Noinaj, N]]
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[[Category: Buchanan SK]]
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[[Category: Yang, D C]]
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[[Category: He Y]]
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[[Category: Methylation]]
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[[Category: Noinaj N]]
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[[Category: Methyltransferase]]
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[[Category: Yang DC]]
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[[Category: Rossmann fold]]
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[[Category: Sam binding protein]]
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[[Category: Transferase]]
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Current revision

The structure of PKMT1 from Rickettsia prowazekii in complex with AdoMet

PDB ID 5dpd

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