View source for 6gcd


==DNA binding domain of restriction endonuclease McrBC in complex with 5-hydroxymethylcytosine DNA==
<StructureSection load='6gcd' size='340' side='right' caption='[[6gcd]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[6gcd]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6GCD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6GCD FirstGlance]. <br>
</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=5HC:2-DEOXY-5-(HYDROXYMETHYL)CYTIDINE+5-(DIHYDROGEN+PHOSPHATE)'>5HC</scene>, <scene name='pdbligand=CME:S,S-(2-HYDROXYETHYL)THIOCYSTEINE'>CME</scene></td></tr>
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">mcrB, rglB, b4346, JW5871 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</td></tr>
<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=6gcd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6gcd OCA], [http://pdbe.org/6gcd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6gcd RCSB], [http://www.ebi.ac.uk/pdbsum/6gcd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6gcd ProSAT]</span></td></tr>
</table>
== Function ==
[[http://www.uniprot.org/uniprot/MCRB_ECOLI MCRB_ECOLI]] Recognizes N4- and C5-methylcytosine (and 5-hydroxy-methylcytosines) produced by a broad range of DNA methylases and appears to act against 5-methylcytosine preceded by a purine residue. Binds to DNA containing methylated cytosines; also binds to GTP. Isoform 33 kDa is less active than isoform 51 kDa and may play a role in regulating the activity of isoform 51 kDa by competing with it in DNA and protein binding abilities. 
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== Publication Abstract from PubMed ==
Cytosine modifications expand the information content of genomic DNA in both eukaryotes and prokaryotes, providing means for epigenetic regulation and self versus non-self discrimination. For example, the methyl-directed restriction endonuclease McrBC recognizes and cuts invading bacteriophage DNA containing 5-methylcytosine (5mC), 5-hydroxymethylcytosine (5hmC) and N4-methylcytosine (4mC), leaving unmodified host DNA intact. Here, we present co-crystal structures of McrB-N bound to DNA oligoduplexes containing 5hmC, 5-formylcytosine (5fC) and 4mC, and characterise the relative affinity of McrB-N to various cytosine variants. We find that McrB-N flips out modified bases into a protein pocket and binds cytosine derivatives in the order of descending affinity: 4mC&gt;5mC&gt;5hmC&gt;&gt;5fC. We also show that pocket mutations alter the relative preference of McrB-N to 5mC, 5hmC and 4mC. This article is protected by copyright. All rights reserved.

Recognition of modified cytosine variants by the DNA binding domain of methyl-directed endonuclease McrBC.,Zagorskaite E, Manakova E, Sasnauskas G FEBS Lett. 2018 Sep 8. doi: 10.1002/1873-3468.13244. PMID:30194838<ref>PMID:30194838</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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== References ==
<references/>
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</StructureSection>
[[Category: Ecoli]]
[[Category: Manakova, E]]
[[Category: Sasnauskas, G]]
[[Category: 5-hydroxymethylcytosine]]
[[Category: Base flipping]]
[[Category: Dna binding protein]]
[[Category: Mcrbc]]
[[Category: Restriction endonuclease]]