6pbd: Difference between revisions

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-'''Unreleased structure'''
-The entry 6pbd is ON HOLD  until Paper Publication
+==DNA N6-Adenine Methyltransferase CcrM In Complex with Double-Stranded DNA Oligonucleotide Containing Its Recognition Sequence GAATC==
+<StructureSection load='6pbd' size='340' side='right'caption='[[6pbd]], [[Resolution|resolution]] 2.34&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[6pbd]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Caulobacter_vibrioides Caulobacter vibrioides] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PBD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6PBD 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]] 2.343&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=SFG:SINEFUNGIN'>SFG</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=6pbd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6pbd OCA], [https://pdbe.org/6pbd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6pbd RCSB], [https://www.ebi.ac.uk/pdbsum/6pbd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6pbd ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/CCRM_CAUVC CCRM_CAUVC] A beta subtype methylase that recognizes the double-stranded sequence 5'-GANTC-3' and methylates non-modifed A-2 on the hemimethylated, post-replicative DNA (Probable) (PubMed:12654995) (By similarity). Opens a bubble in the DNA at the recognition site, allowing precise recognition of the sequence and ensuring enzyme specificity (PubMed:31601797). Functions only in the predivisional cell. Responsible for 5'-GANTC-3' methylation in the cell; methylation of hemimethylated sites generated after replication fork passage occurs late in the predivisional cell, near completion of chromosome replication but prior to cell division. Contributes to the accurate cell-cycle control of DNA replication and cellular morphology (By similarity).[UniProtKB:B8GZ33]<ref>PMID:31601797</ref> <ref>PMID:12654995</ref> <ref>PMID:31601797</ref>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The Caulobacter crescentus cell cycle-regulated DNA methyltransferase (CcrM) methylates the adenine of hemimethylated GANTC after replication. Here we present the structure of CcrM in complex with double-stranded DNA containing the recognition sequence. CcrM contains an N-terminal methyltransferase domain and a C-terminal nonspecific DNA-binding domain. CcrM is a dimer, with each monomer contacting primarily one DNA strand: the methyltransferase domain of one molecule binds the target strand, recognizes the target sequence, and catalyzes methyl transfer, while the C-terminal domain of the second molecule binds the non-target strand. The DNA contacts at the 5-base pair recognition site results in dramatic DNA distortions including bending, unwinding and base flipping. The two DNA strands are pulled apart, creating a bubble comprising four recognized base pairs. The five bases of the target strand are recognized meticulously by stacking contacts, van der Waals interactions and specific Watson-Crick polar hydrogen bonds to ensure high enzymatic specificity.
-Authors:
+The cell cycle-regulated DNA adenine methyltransferase CcrM opens a bubble at its DNA recognition site.,Horton JR, Woodcock CB, Opot SB, Reich NO, Zhang X, Cheng X Nat Commun. 2019 Oct 10;10(1):4600. doi: 10.1038/s41467-019-12498-7. PMID:31601797<ref>PMID:31601797</ref>
-Description:
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
+<div class="pdbe-citations 6pbd" style="background-color:#fffaf0;"></div>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Caulobacter vibrioides]]
+[[Category: Large Structures]]
+[[Category: Synthetic construct]]
+[[Category: Cheng X]]
+[[Category: Horton JR]]
+[[Category: Woodcock CB]]