3ufb

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Current revision (08:38, 20 March 2024) (edit) (undo)
 
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<StructureSection load='3ufb' size='340' side='right'caption='[[3ufb]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
<StructureSection load='3ufb' size='340' side='right'caption='[[3ufb]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[3ufb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Vibvy Vibvy]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UFB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3UFB FirstGlance]. <br>
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<table><tr><td colspan='2'>[[3ufb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Vibrio_vulnificus_YJ016 Vibrio vulnificus YJ016]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UFB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3UFB FirstGlance]. <br>
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</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">VV0266 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=196600 VIBVY])</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]] 1.8&#8491;</td></tr>
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<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Site-specific_DNA-methyltransferase_(adenine-specific) Site-specific DNA-methyltransferase (adenine-specific)], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.72 2.1.1.72] </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=3ufb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ufb OCA], [https://pdbe.org/3ufb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ufb RCSB], [https://www.ebi.ac.uk/pdbsum/3ufb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ufb 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=3ufb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ufb OCA], [https://pdbe.org/3ufb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ufb RCSB], [https://www.ebi.ac.uk/pdbsum/3ufb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ufb 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/Q7MPU6_VIBVY Q7MPU6_VIBVY]
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In multifunctional type I restriction enzymes, active methyltransferases (MTases) are constituted of methylation (HsdM) and specificity (HsdS) subunits. In this study, the crystal structure of a putative HsdM subunit from Vibrio vulnificus YJ016 (vvHsdM) was elucidated at a resolution of 1.80 A. A cofactor-binding site for S-adenosyl-L-methionine (SAM, a methyl-group donor) is formed within the C-terminal domain of an alpha/beta-fold, in which a number of residues are conserved, including the GxGG and (N/D)PP(F/Y) motifs, which are likely to interact with several functional moieties of the SAM methyl-group donor. Comparison with the N6 DNA MTase of Thermus aquaticus and other HsdM structures suggests that two aromatic rings (Phe199 and Phe312) in the motifs that are conserved among the HsdMs may sandwich both sides of the adenine ring of the recognition sequence so that a conserved Asn residue (Asn309) can interact with the N6 atom of the target adenine base (a methyl-group acceptor) and locate the target adenine base close to the transferred SAM methyl group.
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Structural characterization of a modification subunit of a putative type I restriction enzyme from Vibrio vulnificus YJ016.,Park SY, Lee HJ, Song JM, Sun J, Hwang HJ, Nishi K, Kim JS Acta Crystallogr D Biol Crystallogr. 2012 Nov;68(Pt 11):1570-7. doi:, 10.1107/S0907444912038826. Epub 2012 Oct 18. PMID:23090406<ref>PMID:23090406</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 3ufb" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Large Structures]]
[[Category: Large Structures]]
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[[Category: Vibvy]]
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[[Category: Vibrio vulnificus YJ016]]
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[[Category: Kim, J S]]
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[[Category: Kim JS]]
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[[Category: Lee, H J]]
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[[Category: Lee HJ]]
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[[Category: Nishi, K]]
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[[Category: Nishi K]]
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[[Category: Park, S Y]]
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[[Category: Park SY]]
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[[Category: Song, J M]]
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[[Category: Song JM]]
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[[Category: Sun, J]]
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[[Category: Sun J]]
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[[Category: Methyltransferase activity]]
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[[Category: Transferase]]
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Current revision

Crystal structure of a modification subunit of a putative type I restriction enzyme from Vibrio vulnificus YJ016

PDB ID 3ufb

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