2zcj - Revision history

OCA at 19:19, 29 May 2024

OCA — Wed, 29 May 2024 19:19:33 GMT

←Older revision		Revision as of 19:19, 29 May 2024
Line 3:		Line 3:
	<StructureSection load='2zcj' size='340' side='right'caption='[[2zcj]], [[Resolution\|resolution]] 2.75Å' scene=''>		<StructureSection load='2zcj' size='340' side='right'caption='[[2zcj]], [[Resolution\|resolution]] 2.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zcj]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_10014 Atcc 10014~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZCJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZCJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zcj]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Haemophilus_parahaemolyticus Haemophilus parahaemolyticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZCJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZCJ FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=SAH:S~~-~~ADENOSYL-L-HOMOCYSTEINE'>SAH</scene></td></tr>~~	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.75Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; ~~max-height: 3em;'>[[2hr1\|2hr1]], [[2z6u\|2z6u]]</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>hhaIM ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id~~=735 ATCC 10014])</td></tr>~~	+
-	~~<tr id='activity'><td class~~="~~sblockLbl~~"><~~b>Activity:</b></td><td class~~=~~"sblockDat"><span class~~=~~'plainlinks'>[https~~:~~//en.wikipedia.org/wiki/DNA_(cytosine~~-5-)-~~methyltransferase DNA (cytosine-5-)-methyltransferase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.37 2.1.1.37]~~ </~~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=2zcj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zcj OCA], [https://pdbe.org/2zcj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zcj RCSB], [https://www.ebi.ac.uk/pdbsum/2zcj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zcj 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=2zcj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zcj OCA], [https://pdbe.org/2zcj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zcj RCSB], [https://www.ebi.ac.uk/pdbsum/2zcj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zcj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/MTH1_HAEPH MTH1_HAEPH]] This methylase recognizes the double-stranded sequence GCGC, causes specific methylation on C-2 on both strands, and protects the DNA from cleavage by the HhaI endonuclease.	+	[https://www.uniprot.org/uniprot/MTH1_HAEPH MTH1_HAEPH] This methylase recognizes the double-stranded sequence GCGC, causes specific methylation on C-2 on both strands, and protects the DNA from cleavage by the HhaI endonuclease.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Atcc 10014~~]]	+	[[Category: Haemophilus parahaemolyticus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Reich~~, N O~~]]	+	[[Category: Reich NO]]
-	[[Category: Shieh~~, F K]]~~	+	[[Category: Shieh FK]]
-	~~[[Category: 3-layer sandwich]]~~	+
-	~~[[Category: Alpha and beta]]~~	+
-	~~[[Category: Methyltransferase]]~~	+
-	~~[[Category: Restriction system]]~~	+
-	~~[[Category: S-adenosyl-l-methionine]]~~	+
-	~~[[Category: Transferase-dna complex~~]]	+

OCA at 07:14, 10 November 2021

OCA — Wed, 10 Nov 2021 07:14:37 GMT

←Older revision		Revision as of 07:14, 10 November 2021
Line 1:		Line 1:

	==Ternary structure of the Glu119Gln M.HhaI, C5-Cytosine DNA methyltransferase, with unmodified DNA and AdoHcy==		==Ternary structure of the Glu119Gln M.HhaI, C5-Cytosine DNA methyltransferase, with unmodified DNA and AdoHcy==
-	<StructureSection load='2zcj' size='340' side='right' caption='[[2zcj]], [[Resolution\|resolution]] 2.75Å' scene=''>	+	<StructureSection load='2zcj' size='340' side='right'caption='[[2zcj]], [[Resolution\|resolution]] 2.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zcj]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_10014 Atcc 10014]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZCJ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2ZCJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zcj]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_10014 Atcc 10014]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZCJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZCJ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2hr1\|2hr1]], [[2z6u\|2z6u]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2hr1\|2hr1]], [[2z6u\|2z6u]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hhaIM ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=735 ATCC 10014])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hhaIM ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=735 ATCC 10014])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/DNA_(cytosine-5-)-methyltransferase DNA (cytosine-5-)-methyltransferase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.37 2.1.1.37] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/DNA_(cytosine-5-)-methyltransferase DNA (cytosine-5-)-methyltransferase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.37 2.1.1.37] </span></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=2zcj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zcj OCA], [~~http~~://pdbe.org/2zcj PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2zcj RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2zcj PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2zcj 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=2zcj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zcj OCA], [https://pdbe.org/2zcj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zcj RCSB], [https://www.ebi.ac.uk/pdbsum/2zcj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zcj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/MTH1_HAEPH MTH1_HAEPH]] This methylase recognizes the double-stranded sequence GCGC, causes specific methylation on C-2 on both strands, and protects the DNA from cleavage by the HhaI endonuclease.	+	[[https://www.uniprot.org/uniprot/MTH1_HAEPH MTH1_HAEPH]] This methylase recognizes the double-stranded sequence GCGC, causes specific methylation on C-2 on both strands, and protects the DNA from cleavage by the HhaI endonuclease.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 33:

	==See Also==		==See Also==
-	*[[DNA methyltransferase\|DNA methyltransferase]]	+	*[[DNA methyltransferase 3D structures\|DNA methyltransferase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 39:		Line 39:
	</StructureSection>		</StructureSection>
	[[Category: Atcc 10014]]		[[Category: Atcc 10014]]
		+	[[Category: Large Structures]]
	[[Category: Reich, N O]]		[[Category: Reich, N O]]
	[[Category: Shieh, F K]]		[[Category: Shieh, F K]]

OCA at 07:34, 18 October 2018

OCA — Thu, 18 Oct 2018 07:34:24 GMT

←Older revision		Revision as of 07:34, 18 October 2018
Line 1:		Line 1:
		+
	==Ternary structure of the Glu119Gln M.HhaI, C5-Cytosine DNA methyltransferase, with unmodified DNA and AdoHcy==		==Ternary structure of the Glu119Gln M.HhaI, C5-Cytosine DNA methyltransferase, with unmodified DNA and AdoHcy==
	<StructureSection load='2zcj' size='340' side='right' caption='[[2zcj]], [[Resolution\|resolution]] 2.75Å' scene=''>		<StructureSection load='2zcj' size='340' side='right' caption='[[2zcj]], [[Resolution\|resolution]] 2.75Å' scene=''>
Line 7:		Line 8:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hhaIM ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=735 ATCC 10014])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hhaIM ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=735 ATCC 10014])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA_(cytosine-5-)-methyltransferase DNA (cytosine-5-)-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.37 2.1.1.37] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA_(cytosine-5-)-methyltransferase DNA (cytosine-5-)-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.37 2.1.1.37] </span></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=2zcj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zcj OCA], [http://pdbe.org/2zcj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2zcj RCSB], [http://www.ebi.ac.uk/pdbsum/2zcj PDBsum]</span></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=2zcj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zcj OCA], [http://pdbe.org/2zcj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2zcj RCSB], [http://www.ebi.ac.uk/pdbsum/2zcj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2zcj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zc/2zcj_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zc/2zcj_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
Line 33:		Line 34:
	==See Also==		==See Also==
	*[[DNA methyltransferase\|DNA methyltransferase]]		*[[DNA methyltransferase\|DNA methyltransferase]]
-	*[[HhaI DNA methyltransferase\|HhaI DNA methyltransferase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 15:57, 9 February 2016

OCA — Tue, 09 Feb 2016 15:57:11 GMT

←Older revision		Revision as of 15:57, 9 February 2016
Line 2:		Line 2:
	<StructureSection load='2zcj' size='340' side='right' caption='[[2zcj]], [[Resolution\|resolution]] 2.75Å' scene=''>		<StructureSection load='2zcj' size='340' side='right' caption='[[2zcj]], [[Resolution\|resolution]] 2.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zcj]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Haemophilus_parahaemolyticus Haemophilus parahaemolyticus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZCJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZCJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zcj]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_10014 Atcc 10014]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZCJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZCJ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2hr1\|2hr1]], [[2z6u\|2z6u]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2hr1\|2hr1]], [[2z6u\|2z6u]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hhaIM ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=735 ~~Haemophilus parahaemolyticus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hhaIM ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=735 ATCC 10014])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA_(cytosine-5-)-methyltransferase DNA (cytosine-5-)-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.37 2.1.1.37] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA_(cytosine-5-)-methyltransferase DNA (cytosine-5-)-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.37 2.1.1.37] </span></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=2zcj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zcj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zcj RCSB], [http://www.ebi.ac.uk/pdbsum/2zcj PDBsum]</span></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=2zcj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zcj OCA], [http://pdbe.org/2zcj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2zcj RCSB], [http://www.ebi.ac.uk/pdbsum/2zcj PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 19:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2zcj ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 2zcj" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 37:		Line 38:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Haemophilus parahaemolyticus~~]]	+	[[Category: Atcc 10014]]
	[[Category: Reich, N O]]		[[Category: Reich, N O]]
	[[Category: Shieh, F K]]		[[Category: Shieh, F K]]

OCA at 07:55, 25 December 2014

OCA — Thu, 25 Dec 2014 07:55:10 GMT

←Older revision		Revision as of 07:55, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2zcj]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_parahaemolyticus Haemophilus parahaemolyticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZCJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZCJ FirstGlance]. <br>		<table><tr><td colspan='2'>[[2zcj]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_parahaemolyticus Haemophilus parahaemolyticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZCJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZCJ FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2hr1\|2hr1]], [[2z6u\|2z6u]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2hr1\|2hr1]], [[2z6u\|2z6u]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hhaIM ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=735 Haemophilus parahaemolyticus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hhaIM ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=735 Haemophilus parahaemolyticus])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA_(cytosine-5-)-methyltransferase DNA (cytosine-5-)-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.37 2.1.1.37] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA_(cytosine-5-)-methyltransferase DNA (cytosine-5-)-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.37 2.1.1.37] </span></td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2zcj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zcj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zcj RCSB], [http://www.ebi.ac.uk/pdbsum/2zcj PDBsum]</span></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=2zcj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zcj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zcj RCSB], [http://www.ebi.ac.uk/pdbsum/2zcj PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/MTH1_HAEPH MTH1_HAEPH]] This methylase recognizes the double-stranded sequence GCGC, causes specific methylation on C-2 on both strands, and protects the DNA from cleavage by the HhaI endonuclease.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 36:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Haemophilus parahaemolyticus]]		[[Category: Haemophilus parahaemolyticus]]
-	[[Category: Reich, N O.]]	+	[[Category: Reich, N O]]
-	[[Category: Shieh, F K.]]	+	[[Category: Shieh, F K]]
	[[Category: 3-layer sandwich]]		[[Category: 3-layer sandwich]]
	[[Category: Alpha and beta]]		[[Category: Alpha and beta]]

OCA at 08:14, 29 September 2014

OCA — Mon, 29 Sep 2014 08:14:27 GMT

←Older revision		Revision as of 08:14, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2zcj.~~png~~\|~~left~~\|200px]]	+	==Ternary structure of the Glu119Gln M.HhaI, C5-Cytosine DNA methyltransferase, with unmodified DNA and AdoHcy==
		+	<StructureSection load='2zcj' size='340' side='right' caption='[[2zcj]], [[Resolution\|resolution]] 2.75Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2zcj]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_parahaemolyticus Haemophilus parahaemolyticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZCJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZCJ FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2hr1\|2hr1]], [[2z6u\|2z6u]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hhaIM ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=735 Haemophilus parahaemolyticus])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA_(cytosine-5-)-methyltransferase DNA (cytosine-5-)-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.37 2.1.1.37] </span></td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2zcj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zcj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zcj RCSB], [http://www.ebi.ac.uk/pdbsum/2zcj PDBsum]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zc/2zcj_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The role of Glu119 in S-adenosyl-L-methionine-dependent DNA methyltransferase M.HhaI-catalyzed DNA methylation was studied. Glu119 belongs to the highly conserved Glu/Asn/Val motif found in all DNA C5-cytosine methyltransferases, and its importance for M.HhaI function remains untested. We show that formation of the covalent intermediate between Cys81 and the target cytosine requires Glu119, since conversion to Ala, Asp or Gln lowers the rate of methyl transfer 10(2)-10(6) fold. Further, unlike the wild-type M.HhaI, these mutants are not trapped by the substrate in which the target cytosine is replaced with the mechanism-based inhibitor 5-fluorocytosine. The DNA binding affinity for the Glu119Asp mutant is decreased 10(3)-fold. Thus, the ability of the enzyme to stabilize the extrahelical cytosine is coupled directly to tight DNA binding. The structures of the ternary protein/DNA/AdoHcy complexes for both the Glu119Ala and Glu119Gln mutants (2.70 A and 2.75 A, respectively) show that the flipped base is positioned nearly identically with that observed in the wild-type M.HhaI complex. A single water molecule in the Glu119Ala structure between Ala119 and the extrahelical cytosine N3 is lacking in the Glu119Gln and wild-type M.HhaI structures, and most likely accounts for this mutant's partial activity. Glu119 has essential roles in activating the target cytosine for nucleophilic attack and contributes to tight DNA binding.

-	~~{{STRUCTURE_2zcj\| PDB=2zcj \| SCENE= }}~~	+	AdoMet-dependent methyl-transfer: Glu119 is essential for DNA C5-cytosine methyltransferase M.HhaI.,Shieh FK, Reich NO J Mol Biol. 2007 Nov 9;373(5):1157-68. Epub 2007 Aug 19. PMID:17897676<ref>PMID:17897676</ref>

-	~~===Ternary structure~~ of the ~~Glu119Gln M~~.~~HhaI, C5-Cytosine DNA methyltransferase, with unmodified DNA and AdoHcy===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_17897676}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2zcj]] is a 3 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org~~/~~wiki/Haemophilus_parahaemolyticus Haemophilus parahaemolyticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZCJ OCA].~~	+

	==See Also==		==See Also==
	*[[DNA methyltransferase\|DNA methyltransferase]]		*[[DNA methyltransferase\|DNA methyltransferase]]
-		+	*[[HhaI DNA methyltransferase\|HhaI DNA methyltransferase]]
-	==~~Reference~~==	+	== References ==
-	<~~ref group="xtra">PMID:017897676<~~/~~ref~~><~~references group="xtra"~~/>	+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Haemophilus parahaemolyticus]]		[[Category: Haemophilus parahaemolyticus]]
	[[Category: Reich, N O.]]		[[Category: Reich, N O.]]

OCA at 14:22, 20 October 2012

OCA — Sat, 20 Oct 2012 14:22:14 GMT

←Older revision		Revision as of 14:22, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2zcj]] is a 3 chain structure ~~of [[DNA methyltransferase]]~~ with sequence from [http://en.wikipedia.org/wiki/Haemophilus_parahaemolyticus Haemophilus parahaemolyticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZCJ OCA].	+	[[2zcj]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_parahaemolyticus Haemophilus parahaemolyticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZCJ OCA].

	==See Also==		==See Also==

OCA: Protected "2zcj" [edit=sysop:move=sysop]

OCA — Thu, 26 Jul 2012 14:56:04 GMT

Protected "2zcj" [edit=sysop:move=sysop]

←Older revision

Revision as of 14:56, 26 July 2012

OCA at 14:56, 26 July 2012

OCA — Thu, 26 Jul 2012 14:56:03 GMT

←Older revision		Revision as of 14:56, 26 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2zcj.png\|left\|200px]]		[[Image:2zcj.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2zcj", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_2zcj\| PDB=2zcj \| SCENE= }}		{{STRUCTURE_2zcj\| PDB=2zcj \| SCENE= }}

	===Ternary structure of the Glu119Gln M.HhaI, C5-Cytosine DNA methyltransferase, with unmodified DNA and AdoHcy===		===Ternary structure of the Glu119Gln M.HhaI, C5-Cytosine DNA methyltransferase, with unmodified DNA and AdoHcy===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_17897676}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 17897676 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_17897676}}		{{ABSTRACT_PUBMED_17897676}}

	==About this Structure==		==About this Structure==
-	~~2ZCJ~~ is a 3 ~~chains~~ structure of ~~sequences~~ from [http://en.wikipedia.org/wiki/Haemophilus_parahaemolyticus Haemophilus parahaemolyticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZCJ OCA].	+	[[2zcj]] is a 3 chain structure of [[DNA methyltransferase]] with sequence from [http://en.wikipedia.org/wiki/Haemophilus_parahaemolyticus Haemophilus parahaemolyticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZCJ OCA].
		+
		+	==See Also==
		+	*[[DNA methyltransferase\|DNA methyltransferase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~17897676~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:017897676</ref><references group="xtra"/>
	[[Category: Haemophilus parahaemolyticus]]		[[Category: Haemophilus parahaemolyticus]]
	[[Category: Reich, N O.]]		[[Category: Reich, N O.]]
Line 32:		Line 23:
	[[Category: Restriction system]]		[[Category: Restriction system]]
	[[Category: S-adenosyl-l-methionine]]		[[Category: S-adenosyl-l-methionine]]
-	[[Category: Transferase/dna complex]]	+	[[Category: Transferase-dna complex]]
-		+
-	~~''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 10:59:59 2009''~~	+

OCA at 09:00, 17 February 2009

OCA — Tue, 17 Feb 2009 09:00:00 GMT

←Older revision		Revision as of 09:00, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	2ZCJ is a ~~[[Protein complex]]~~ structure of sequences from [http://en.wikipedia.org/wiki/Haemophilus_parahaemolyticus Haemophilus parahaemolyticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZCJ OCA].	+	2ZCJ is a 3 chains structure of sequences from [http://en.wikipedia.org/wiki/Haemophilus_parahaemolyticus Haemophilus parahaemolyticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZCJ OCA].

	==Reference==		==Reference==
-	~~AdoMet-dependent methyl-transfer: Glu119 is essential for DNA C5-cytosine methyltransferase M.HhaI., Shieh FK, Reich NO, J Mol Biol. 2007 Nov 9;373(5):1157-68. Epub 2007 Aug 19.~~ PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/17897676 17897676]~~	+	<ref group="xtra">PMID:17897676</ref><references group="xtra"/>
	[[Category: Haemophilus parahaemolyticus]]		[[Category: Haemophilus parahaemolyticus]]
-	[[Category: Protein complex]]
	[[Category: Reich, N O.]]		[[Category: Reich, N O.]]
	[[Category: Shieh, F K.]]		[[Category: Shieh, F K.]]
Line 35:		Line 34:
	[[Category: Transferase/dna complex]]		[[Category: Transferase/dna complex]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Mon Jul 28 14~~:59:~~51 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 10:59:59 2009''