4mda: Difference between revisions

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-{{STRUCTURE_4mda|  PDB=4mda  |  SCENE=  }}
-===Structure of Mos1 transposase catalytic domain and Raltegravir with Mn===
-{{ABSTRACT_PUBMED_24397848}}
-==Function==
+==Structure of Mos1 transposase catalytic domain and Raltegravir with Mn==
-[[http://www.uniprot.org/uniprot/MOS1T_DROMA MOS1T_DROMA]] Mediates transposition of transposon Mos1 by a 'cut and paste' mechanism. Transposases are sequence-specific nucleases and strand transferases that catalyze transposition through an ordered series of events: sequence-specific binding of transposase to the terminal inverted repeats (IR) present at each end of the transposon, pairing of the transposon IRs in a paired-end complex (PEC), cleavage of one or both DNA strands at each transposon end, capture of target DNA, and strand transfer to insert the transposon at a new site.
+<StructureSection load='4mda' size='340' side='right'caption='[[4mda]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[4mda]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Drosophila_mauritiana Drosophila mauritiana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4MDA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4MDA 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]] 1.7&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=RLT:N-(4-FLUOROBENZYL)-5-HYDROXY-1-METHYL-2-(1-METHYL-1-{[(5-METHYL-1,3,4-OXADIAZOL-2-YL)CARBONYL]AMINO}ETHYL)-6-OXO-1,6-DIHYDROPYRIMIDINE-4-CARBOXAMIDE'>RLT</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=4mda FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4mda OCA], [https://pdbe.org/4mda PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4mda RCSB], [https://www.ebi.ac.uk/pdbsum/4mda PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4mda ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/MOS1T_DROMA MOS1T_DROMA] Mediates transposition of transposon Mos1 by a 'cut and paste' mechanism. Transposases are sequence-specific nucleases and strand transferases that catalyze transposition through an ordered series of events: sequence-specific binding of transposase to the terminal inverted repeats (IR) present at each end of the transposon, pairing of the transposon IRs in a paired-end complex (PEC), cleavage of one or both DNA strands at each transposon end, capture of target DNA, and strand transfer to insert the transposon at a new site.
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+DNA transposases catalyze the movement of transposons around genomes by a cut-and-paste mechanism related to retroviral integration. Transposases and retroviral integrases share a common RNaseH-like domain with a catalytic DDE/D triad that coordinates the divalent cations required for DNA cleavage and integration. The anti-retroviral drugs Raltegravir and Elvitegravir inhibit integrases by displacing viral DNA ends from the catalytic metal ions. We demonstrate that Raltegravir, but not Elvitegravir, binds to Mos1 transposase in the presence of Mg2+ or Mn2+, without the requirement for transposon DNA, and inhibits transposon cleavage and DNA integration in biochemical assays. Crystal structures at 1.7 A resolution show Raltegravir, in common with integrases, coordinating two Mg2+ or Mn2+ ions in the Mos1 active site. However, in the absence of transposon ends, the drug adopts an unusual, compact binding mode distinct from that observed in the active site of the prototype foamy virus integrase.
-==About this Structure==
+Structural Basis of Mos1 Transposase Inhibition by the Anti-retroviral Drug Raltegravir.,Wolkowicz UM, Morris ER, Robson M, Trubitsyna M, Richardson JM ACS Chem Biol. 2014 Jan 10. PMID:24397848<ref>PMID:24397848</ref>
-[[4mda]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4MDA OCA].
-==Reference==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-<ref group="xtra">PMID:024397848</ref><references group="xtra"/><references/>
+</div>
-[[Category: Richardson, J M.]]
+<div class="pdbe-citations 4mda" style="background-color:#fffaf0;"></div>
-[[Category: Ddd motif]]
-[[Category: Dna integration]]
+==See Also==
-[[Category: Dna transposition]]
+*[[Transposase 3D structures|Transposase 3D structures]]
-[[Category: Hydrolase-hydrolase inhibitor complex]]
+== References ==
-[[Category: Recombinase]]
+<references/>
-[[Category: Rnase-h fold]]
+__TOC__
-[[Category: Transposon dna]]
+</StructureSection>
+[[Category: Drosophila mauritiana]]
+[[Category: Large Structures]]
+[[Category: Richardson JM]]