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6hz5

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Structure of McrBC without DNA binding domains (Class 1)

6hz5, resolution 4.20Å

Structural highlights

6hz5 is a 14 chain structure with sequence from Ecoli. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:
Gene:	mcrB, rglB, b4346, JW5871 (ECOLI), mcrC, b4345, JW5789 (ECOLI)
Experimental data:	Check to display Experimental Data
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[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. [MCRC_ECOLI] Modifies the specificity of McrB restriction by expanding the range of modified sequences restricted. Does not bind to DNA.

Publication Abstract from PubMed

The AAA+ GTPase McrB powers DNA cleavage by the endonuclease McrC. The GTPase itself is activated by McrC. The architecture of the GTPase and nuclease complex, and the mechanism of their activation remained unknown. Here, we report a 3.6 A structure of a GTPase-active and DNA-binding deficient construct of McrBC. Two hexameric rings of McrB are bridged by McrC dimer. McrC interacts asymmetrically with McrB protomers and inserts a stalk into the pore of the ring, reminiscent of the gamma subunit complexed to alpha3beta3 of F1-ATPase. Activation of the GTPase involves conformational changes of residues essential for hydrolysis. Three consecutive nucleotide-binding pockets are occupied by the GTP analogue 5'-guanylyl imidodiphosphate and the next three by GDP, which is suggestive of sequential GTP hydrolysis.

Structure-based mechanism for activation of the AAA+ GTPase McrB by the endonuclease McrC.,Nirwan N, Itoh Y, Singh P, Bandyopadhyay S, Vinothkumar KR, Amunts A, Saikrishnan K Nat Commun. 2019 Jul 11;10(1):3058. doi: 10.1038/s41467-019-11084-1. PMID:31296862^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Nirwan N, Itoh Y, Singh P, Bandyopadhyay S, Vinothkumar KR, Amunts A, Saikrishnan K. Structure-based mechanism for activation of the AAA+ GTPase McrB by the endonuclease McrC. Nat Commun. 2019 Jul 11;10(1):3058. doi: 10.1038/s41467-019-11084-1. PMID:31296862 doi:http://dx.doi.org/10.1038/s41467-019-11084-1

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/6hz5"

@@ Line 1: / Line 1: @@
 ==Structure of McrBC without DNA binding domains (Class 1)==
-<StructureSection load='6hz5' size='340' side='right'caption='[[6hz5]], [[Resolution|resolution]] 4.20&Aring;' scene=''>
+<SX load='6hz5' size='340' side='right' viewer='molstar' caption='[[6hz5]], [[Resolution|resolution]] 4.20&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[6hz5]] is a 14 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=6HZ5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6HZ5 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[6hz5]] is a 14 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=6HZ5 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6HZ5 FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=GNP:PHOSPHOAMINOPHOSPHONIC+ACID-GUANYLATE+ESTER'>GNP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=GNP:PHOSPHOAMINOPHOSPHONIC+ACID-GUANYLATE+ESTER'>GNP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]), mcrC, b4345, JW5789 ([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=6hz5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hz5 OCA], [http://pdbe.org/6hz5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6hz5 RCSB], [http://www.ebi.ac.uk/pdbsum/6hz5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6hz5 ProSAT]</span></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6hz5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hz5 OCA], [http://pdbe.org/6hz5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6hz5 RCSB], [http://www.ebi.ac.uk/pdbsum/6hz5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6hz5 ProSAT]</span></td></tr>
 </table>
 == Function ==
@@ Line 22: / Line 22: @@
 <references/>
 __TOC__
-</StructureSection>
+</SX>
 [[Category: Ecoli]]
 [[Category: Large Structures]]

6hz5

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Current revision

Structure of McrBC without DNA binding domains (Class 1)

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

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