6pcm: Difference between revisions

<table><tr><td colspan='2'>[[6pcm]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycolicibacterium_smegmatis Mycolicibacterium smegmatis] and [https://en.wikipedia.org/wiki/Mycolicibacterium_smegmatis_MC2_155 Mycolicibacterium smegmatis MC2 155]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PCM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6PCM 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]] 3.107&#8491;</td></tr>

<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><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=6pcm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6pcm OCA], [https://pdbe.org/6pcm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6pcm RCSB], [https://www.ebi.ac.uk/pdbsum/6pcm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6pcm ProSAT]</span></td></tr>

[https://www.uniprot.org/uniprot/TOP1_MYCS2 TOP1_MYCS2] Releases the supercoiling and torsional tension of DNA, which is introduced during the DNA replication and transcription, by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5'-phosphotyrosyl)-enzyme intermediate (PubMed:9593741) and the expulsion of a 3'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand, thus removing DNA supercoils. Finally, in the religation step, the DNA 3'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone (By similarity).[HAMAP-Rule:MF_00952]<ref>PMID:9593741</ref>  Relaxes negatively (but not positively) supercoiled DNA, concatanates and knots circular ssDNA at 52 but not 37 degrees Celsius (PubMed:9593741). Preferentially nicks supercoiled DNA at C(G/T)CTT, cutting between the TT residues, binds ss and dsDNA with the recognition site (PubMed:10734203).<ref>PMID:10734203</ref> <ref>PMID:9593741</ref>  

[[Category: Mycolicibacterium smegmatis]]

[[Category: Mycolicibacterium smegmatis MC2 155]]

[[Category: Cao N]]

[[Category: Tan K]]

[[Category: Tse-Dinh YC]]