6mht - Revision history

OCA at 11:07, 2 August 2023

2023-08-02T11:07:08Z

←Older revision		Revision as of 11:07, 2 August 2023
Line 3:		Line 3:
	<StructureSection load='6mht' size='340' side='right'caption='[[6mht]], [[Resolution\|resolution]] 2.05Å' scene=''>		<StructureSection load='6mht' size='340' side='right'caption='[[6mht]], [[Resolution\|resolution]] 2.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6mht]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/ ~~] and [https://en.wikipedia.org/wiki/"bacillus_x"_pritchett_and_stillman_1919 "bacillus x" pritchett and stillman 1919~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MHT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6MHT FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6mht]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Haemophilus_haemolyticus Haemophilus haemolyticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MHT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6MHT FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=SAM:S~~-~~ADENOSYLMETHIONINE'>SAM</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]] 2.05Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=4SC:4-THIO-2-DEOXYCYTIDINE-5-MONOPHOSPHATE+GROUP'>4SC</scene>, <scene name='pdbligand=5CM:5-METHYL-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>5CM</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=4SC:4-THIO-2-DEOXYCYTIDINE-5-MONOPHOSPHATE+GROUP'>4SC</scene>, <scene name='pdbligand=5CM:5-METHYL-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>5CM</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene></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=6mht FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mht OCA], [https://pdbe.org/6mht PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6mht RCSB], [https://www.ebi.ac.uk/pdbsum/6mht PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6mht 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=6mht FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mht OCA], [https://pdbe.org/6mht PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6mht RCSB], [https://www.ebi.ac.uk/pdbsum/6mht PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6mht 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]]
Line 37:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus x pritchett and stillman 1919~~]]	+	[[Category: Haemophilus haemolyticus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Cheng, X]]	+	[[Category: Cheng X]]
-	~~[[Category: Methyltransferase]]~~	+
-	~~[[Category: Restriction system]]~~	+
-	~~[[Category: Transferase]]~~	+
-	~~[[Category: Transferase-dna complex~~]]	+

OCA at 10:16, 13 April 2022

2022-04-13T10:16:28Z

←Older revision		Revision as of 10:16, 13 April 2022
Line 1:		Line 1:
		+
	==TERNARY STRUCTURE OF HHAI METHYLTRANSFERASE WITH ADOHCY AND DNA CONTAINING 4'-THIO-2'DEOXYCYTIDINE AT THE TARGET==		==TERNARY STRUCTURE OF HHAI METHYLTRANSFERASE WITH ADOHCY AND DNA CONTAINING 4'-THIO-2'DEOXYCYTIDINE AT THE TARGET==
-	<StructureSection load='6mht' size='340' side='right' caption='[[6mht]], [[Resolution\|resolution]] 2.05Å' scene=''>	+	<StructureSection load='6mht' size='340' side='right'caption='[[6mht]], [[Resolution\|resolution]] 2.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6mht]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/ ] and [~~http~~://en.wikipedia.org/wiki/"bacillus_x"_pritchett_and_stillman_1919 "bacillus x" pritchett and stillman 1919]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MHT OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6MHT FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6mht]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/ ] and [https://en.wikipedia.org/wiki/"bacillus_x"_pritchett_and_stillman_1919 "bacillus x" pritchett and stillman 1919]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MHT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6MHT FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=4SC:4-THIO-2-DEOXYCYTIDINE-5-MONOPHOSPHATE+GROUP'>4SC</scene>, <scene name='pdbligand=5CM:5-METHYL-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>5CM</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=4SC:4-THIO-2-DEOXYCYTIDINE-5-MONOPHOSPHATE+GROUP'>4SC</scene>, <scene name='pdbligand=5CM:5-METHYL-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>5CM</scene></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=6mht FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mht OCA], [~~http~~://pdbe.org/6mht PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6mht RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6mht PDBsum]</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=6mht FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mht OCA], [https://pdbe.org/6mht PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6mht RCSB], [https://www.ebi.ac.uk/pdbsum/6mht PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6mht 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]]
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/mh/6mht_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/mh/6mht_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 31:		Line 32:

	==See Also==		==See Also==
-	*[[~~HhaI~~ DNA methyltransferase\|~~HhaI~~ DNA methyltransferase]]	+	*[[DNA methyltransferase 3D structures\|DNA methyltransferase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 37:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Bacillus x pritchett and stillman 1919]]		[[Category: Bacillus x pritchett and stillman 1919]]
		+	[[Category: Large Structures]]
	[[Category: Cheng, X]]		[[Category: Cheng, X]]
	[[Category: Methyltransferase]]		[[Category: Methyltransferase]]

OCA at 23:16, 7 February 2016

2016-02-07T23:16:02Z

←Older revision		Revision as of 23:16, 7 February 2016
Line 2:		Line 2:
	<StructureSection load='6mht' size='340' side='right' caption='[[6mht]], [[Resolution\|resolution]] 2.05Å' scene=''>		<StructureSection load='6mht' size='340' side='right' caption='[[6mht]], [[Resolution\|resolution]] 2.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6mht]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Haemophilus_haemolyticus Haemophilus haemolyticus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MHT OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MHT FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6mht]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/ ] and [http://en.wikipedia.org/wiki/"bacillus_x"_pritchett_and_stillman_1919 "bacillus x" pritchett and stillman 1919]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MHT OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MHT FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=4SC:4-THIO-2-DEOXYCYTIDINE-5-MONOPHOSPHATE+GROUP'>4SC</scene>, <scene name='pdbligand=5CM:5-METHYL-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>5CM</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=4SC:4-THIO-2-DEOXYCYTIDINE-5-MONOPHOSPHATE+GROUP'>4SC</scene>, <scene name='pdbligand=5CM:5-METHYL-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>5CM</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/~~Deleted_entry Deleted entry~~], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.73 2.1.1.73] </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=6mht FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mht OCA], [http://www.rcsb.org/pdb/explore.do?structureId=6mht RCSB], [http://www.ebi.ac.uk/pdbsum/6mht 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=6mht FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mht OCA], [http://pdbe.org/6mht PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6mht RCSB], [http://www.ebi.ac.uk/pdbsum/6mht 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 16:		Line 18:
	<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=6mht ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 26:		Line 28:
	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 6mht" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 33:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Deleted entry]]~~	+	[[Category: Bacillus x pritchett and stillman 1919]]
-	~~[[Category: Haemophilus haemolyticus~~]]	+
	[[Category: Cheng, X]]		[[Category: Cheng, X]]
	[[Category: Methyltransferase]]		[[Category: Methyltransferase]]

OCA at 08:55, 5 January 2015

2015-01-05T08:55:38Z

←Older revision		Revision as of 08:55, 5 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6mht]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_haemolyticus Haemophilus haemolyticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MHT OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MHT FirstGlance]. <br>		<table><tr><td colspan='2'>[[6mht]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_haemolyticus Haemophilus haemolyticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MHT OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MHT FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=4SC:4-THIO-2-DEOXYCYTIDINE-5-MONOPHOSPHATE+GROUP'>4SC</scene>, <scene name='pdbligand=5CM:5-METHYL-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>5CM</scene></td></tr>	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=4SC:4-THIO-2-DEOXYCYTIDINE-5-MONOPHOSPHATE+GROUP'>4SC</scene>, <scene name='pdbligand=5CM:5-METHYL-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>5CM</scene></td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Deleted_entry Deleted entry], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.73 2.1.1.73] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Deleted_entry Deleted entry], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.73 2.1.1.73] </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=6mht FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mht OCA], [http://www.rcsb.org/pdb/explore.do?structureId=6mht RCSB], [http://www.ebi.ac.uk/pdbsum/6mht 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=6mht FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mht OCA], [http://www.rcsb.org/pdb/explore.do?structureId=6mht RCSB], [http://www.ebi.ac.uk/pdbsum/6mht PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 35:
	[[Category: Deleted entry]]		[[Category: Deleted entry]]
	[[Category: Haemophilus haemolyticus]]		[[Category: Haemophilus haemolyticus]]
-	[[Category: Cheng, X.]]	+	[[Category: Cheng, X]]
	[[Category: Methyltransferase]]		[[Category: Methyltransferase]]
	[[Category: Restriction system]]		[[Category: Restriction system]]
	[[Category: Transferase]]		[[Category: Transferase]]
	[[Category: Transferase-dna complex]]		[[Category: Transferase-dna complex]]

OCA: Protected "6mht" [edit=sysop:move=sysop]

2014-06-05T08:03:40Z

Protected "6mht" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:03, 5 June 2014

OCA at 08:03, 5 June 2014

2014-06-05T08:03:38Z

←Older revision		Revision as of 08:03, 5 June 2014
Line 1:		Line 1:
-	~~{{Seed}}~~	+	==TERNARY STRUCTURE OF HHAI METHYLTRANSFERASE WITH ADOHCY AND DNA CONTAINING 4'-THIO-2'DEOXYCYTIDINE AT THE TARGET==
-	[[~~Image:~~6mht.~~png~~\|~~left~~\|200px]]	+	<StructureSection load='6mht' size='340' side='right' caption='[[6mht]], [[Resolution\|resolution]] 2.05Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6mht]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_haemolyticus Haemophilus haemolyticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MHT OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MHT FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=4SC:4-THIO-2-DEOXYCYTIDINE-5-MONOPHOSPHATE+GROUP'>4SC</scene>, <scene name='pdbligand=5CM:5-METHYL-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>5CM</scene></td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Deleted_entry Deleted entry], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.73 2.1.1.73] </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=6mht FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mht OCA], [http://www.rcsb.org/pdb/explore.do?structureId=6mht RCSB], [http://www.ebi.ac.uk/pdbsum/6mht 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/mh/6mht_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 ==
		+	4'-Thio-2'-deoxycytidine was synthesized as a 5'- protected phosphoramidite compatible with solid phase DNA synthesis. When incorporated as the target cytosine (C) in the GCGC recognition sequence for the DNA methyltransferase M. HhaI, methyl transfer was strongly inhibited. In contrast, these same oligonucleotides were normal substrates for the cognate restriction endonuclease R. HhaI and its isoschizomer R. Hin P1I. M. HhaI was able to bind both 4'-thio-modified DNA and unmodified DNA to equivalent extents under equilibrium conditions. However, the presence of 4'-thio-2'-deoxycytidine decreased the half-life of the complex by >10-fold. The crystal structure of a ternary complex of M. HhaI, AdoMet and DNA containing 4'-thio-2'-deoxycytidine was solved at 2.05 A resolution with a crystallographic R-factor of 0.186 and R-free of 0.231. The structure is not grossly different from previously solved ternary complexes containing M. HhaI, DNA and AdoHcy. The difference electron density suggests partial methylation at C5 of the flipped target 4'-thio-2'-deoxycytidine. The inhibitory effect of the 4'sulfur atom on enzymatic activity may be traced to perturbation of a step in the methylation reaction after DNA binding but prior to methyl transfer. This inhibitory effect can be partially overcome after a considerably long time in the crystal environment where the packing prevents complex dissociation and the target is accurately positioned within the active site.

-	<!--	+	DNA containing 4'-thio-2'-deoxycytidine inhibits methylation by HhaI methyltransferase.,Kumar S, Horton JR, Jones GD, Walker RT, Roberts RJ, Cheng X Nucleic Acids Res. 1997 Jul 15;25(14):2773-83. PMID:9207024<ref>PMID:9207024</ref>
-	~~The line below this paragraph~~, ~~containing "STRUCTURE_6mht"~~, ~~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_6mht\| PDB=6mht \| SCENE= }}~~	+

-	~~===TERNARY STRUCTURE OF HHAI METHYLTRANSFERASE WITH ADOHCY AND DNA CONTAINING 4'-THIO-2'DEOXYCYTIDINE AT THE TARGET===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-		+	==See Also==
-	~~<!--~~	+	*[[HhaI DNA methyltransferase\|HhaI DNA methyltransferase]]
-	~~The line below this paragraph, {{ABSTRACT_PUBMED_9207024}}, adds the Publication Abstract to the page~~	+	== References ==
-	~~(as it appears on PubMed at http://www.pubmed.gov), where 9207024 is the PubMed ID number.~~	+	<references/>
-	~~-->~~	+	__TOC__
-	~~{{ABSTRACT_PUBMED_9207024}}~~	+	</StructureSection>
-		+
-	==~~About this Structure~~==	+
-	~~6MHT is a 3 chains structure of sequences from~~ [~~http://en.wikipedia.org/wiki/Haemophilus_haemolyticus Haemophilus haemolyticus~~]~~. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MHT OCA~~].	+
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:9207024<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Deleted entry]]		[[Category: Deleted entry]]
	[[Category: Haemophilus haemolyticus]]		[[Category: Haemophilus haemolyticus]]
Line 30:		Line 39:
	[[Category: Restriction system]]		[[Category: Restriction system]]
	[[Category: Transferase]]		[[Category: Transferase]]
-		+	[[Category: Transferase-dna complex]]
-	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Mon Feb 16 17:08:01 2009''~~	+

OCA at 15:08, 16 February 2009

2009-02-16T15:08:03Z

←Older revision		Revision as of 15:08, 16 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	6MHT is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Haemophilus_haemolyticus Haemophilus haemolyticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MHT OCA].	+	6MHT is a 3 chains structure of sequences from [http://en.wikipedia.org/wiki/Haemophilus_haemolyticus Haemophilus haemolyticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MHT OCA].

	==Reference==		==Reference==
-	~~DNA containing 4'-thio-2'-deoxycytidine inhibits methylation by HhaI methyltransferase., Kumar S, Horton JR, Jones GD, Walker RT, Roberts RJ, Cheng X, Nucleic Acids Res. 1997 Jul 15;25(14):2773-83.~~ PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/9207024 9207024]~~	+	<ref group="xtra">PMID:9207024</ref><references group="xtra"/>
	[[Category: Deleted entry]]		[[Category: Deleted entry]]
	[[Category: Haemophilus haemolyticus]]		[[Category: Haemophilus haemolyticus]]
-	[[Category: Single protein]]
	[[Category: Cheng, X.]]		[[Category: Cheng, X.]]
	[[Category: Methyltransferase]]		[[Category: Methyltransferase]]
Line 32:		Line 31:
	[[Category: Transferase]]		[[Category: Transferase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Thu Jul 3 14~~:22:~~05 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 17:08:01 2009''

OCA at 11:22, 3 July 2008

2008-07-03T11:22:06Z

←Older revision		Revision as of 11:22, 3 July 2008
Line 1:		Line 1:
-	[[Image:6mht.~~gif~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:6mht.png\|left\|200px]]

	<!--		<!--
Line 9:		Line 10:
	{{STRUCTURE_6mht\| PDB=6mht \| SCENE= }}		{{STRUCTURE_6mht\| PDB=6mht \| SCENE= }}

-	~~'''~~TERNARY STRUCTURE OF HHAI METHYLTRANSFERASE WITH ADOHCY AND DNA CONTAINING 4'-THIO-2'DEOXYCYTIDINE AT THE TARGET~~'''~~	+	===TERNARY STRUCTURE OF HHAI METHYLTRANSFERASE WITH ADOHCY AND DNA CONTAINING 4'-THIO-2'DEOXYCYTIDINE AT THE TARGET===


-	~~==Overview==~~	+	<!--
-	4'-~~Thio~~-2'-deoxycytidine was synthesized as a 5'- protected phosphoramidite compatible with solid phase DNA synthesis. When incorporated as the target cytosine (C) in the GCGC recognition sequence for the DNA methyltransferase M. HhaI, ~~methyl transfer was strongly inhibited. In contrast~~, ~~these same oligonucleotides were normal substrates for~~ the ~~cognate restriction endonuclease R. HhaI and its isoschizomer R. Hin P1I. M. HhaI was able~~ to ~~bind both 4'-thio-modified DNA and unmodified DNA to equivalent extents under equilibrium conditions. However,~~ the presence of 4'-thio-2'-deoxycytidine decreased the half-life of the complex by >10-fold. The crystal structure of a ternary complex of M. HhaI, AdoMet and DNA containing 4'-thio-2'-deoxycytidine was solved at 2.~~05 A resolution with a crystallographic R-factor of 0~~.~~186 and R-free of 0.231. The structure is not grossly different from previously solved ternary complexes containing M. HhaI~~, DNA and AdoHcy. The difference electron density suggests partial methylation at C5 of the flipped target 4'-thio-2'-deoxycytidine. The inhibitory effect of the 4'sulfur atom on enzymatic activity may be traced to perturbation of a step in the methylation reaction after DNA binding but prior to methyl transfer. This inhibitory effect can be partially overcome after a considerably long time in the crystal environment where ~~the packing prevents complex dissociation and the target~~ is ~~accurately positioned within~~ the ~~active site~~.	+	The line below this paragraph, {{ABSTRACT_PUBMED_9207024}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 9207024 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_9207024}}

	==About this Structure==		==About this Structure==
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	[[Category: Restriction system]]		[[Category: Restriction system]]
	[[Category: Transferase]]		[[Category: Transferase]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun May~~ ~~4 22~~:41:45 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Jul 3 14:22:05 2008''

OCA at 19:41, 4 May 2008

2008-05-04T19:41:46Z

←Older revision		Revision as of 19:41, 4 May 2008
Line 1:		Line 1:
	[[Image:6mht.gif\|left\|200px]]		[[Image:6mht.gif\|left\|200px]]

-	~~{{Structure~~	+	<!--
-	~~\|PDB= 6mht \|SIZE=350\|CAPTION= <scene name='initialview01'>6mht</scene>~~, ~~resolution 2~~.~~05Å~~	+	The line below this paragraph, containing "STRUCTURE_6mht", creates the "Structure Box" on the page.
-	~~\|SITE=~~	+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	~~\|LIGAND= <~~scene ~~name='pdbligand=4SC:4'-THIO-2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE+GROUP'>4SC</scene>~~, <scene name='pdbligand=5CM:5-METHYL-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE'>5CM</scene>, <scene name='pdbligand=DA:2'-DEOXYADENOSINE-5'-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5'-MONOPHOSPHATE'>DT</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene>	+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	~~\|ACTIVITY= <span class='plainlinks'>[http://en~~.~~wikipedia.org/wiki/Deleted_entry Deleted entry], with EC number [http://www.brenda~~-~~enzymes.info/php/result_flat.php4?ecno=2.1.1.73 2.1.1.73] </span~~>	+	or leave the SCENE parameter empty for the default display.
-	\|~~GENE~~=	+	-->
-	\|~~DOMAIN~~=	+	{{STRUCTURE_6mht\| PDB=6mht \| SCENE= }}
-	~~\|RELATEDENTRY=~~	+
-	\|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6mht FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mht OCA], [http://www.ebi.ac.uk/pdbsum/6mht PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=6mht RCSB]</span>	+
-	}}	+

	'''TERNARY STRUCTURE OF HHAI METHYLTRANSFERASE WITH ADOHCY AND DNA CONTAINING 4'-THIO-2'DEOXYCYTIDINE AT THE TARGET'''		'''TERNARY STRUCTURE OF HHAI METHYLTRANSFERASE WITH ADOHCY AND DNA CONTAINING 4'-THIO-2'DEOXYCYTIDINE AT THE TARGET'''
Line 27:		Line 24:
	[[Category: Single protein]]		[[Category: Single protein]]
	[[Category: Cheng, X.]]		[[Category: Cheng, X.]]
-	[[Category: ~~complex (methyltransferase/dna)~~]]	+	[[Category: Methyltransferase]]
-	[[Category: ~~methyltransferase]]~~	+	[[Category: Restriction system]]
-	~~[[Category: restriction~~ system]]	+	[[Category: Transferase]]
-	[[Category: ~~transferase~~]]	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 22:41:45 2008''
-		+
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Mon Mar 31 05~~:43:17 2008''	+

OCA at 02:43, 31 March 2008

2008-03-31T02:43:17Z

←Older revision		Revision as of 02:43, 31 March 2008
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	\|PDB= 6mht \|SIZE=350\|CAPTION= <scene name='initialview01'>6mht</scene>, resolution 2.05Å		\|PDB= 6mht \|SIZE=350\|CAPTION= <scene name='initialview01'>6mht</scene>, resolution 2.05Å
	\|SITE=		\|SITE=
-	\|LIGAND= <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene>	+	\|LIGAND= <scene name='pdbligand=4SC:4'-THIO-2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE+GROUP'>4SC</scene>, <scene name='pdbligand=5CM:5-METHYL-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE'>5CM</scene>, <scene name='pdbligand=DA:2'-DEOXYADENOSINE-5'-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5'-MONOPHOSPHATE'>DT</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene>
-	\|ACTIVITY= [http://en.wikipedia.org/wiki/Deleted_entry Deleted entry], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.73 2.1.1.73]	+	\|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Deleted_entry Deleted entry], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.73 2.1.1.73] </span>
	\|GENE=		\|GENE=
		+	\|DOMAIN=
		+	\|RELATEDENTRY=
		+	\|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6mht FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mht OCA], [http://www.ebi.ac.uk/pdbsum/6mht PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=6mht RCSB]</span>
	}}		}}

Line 24:		Line 27:
	[[Category: Single protein]]		[[Category: Single protein]]
	[[Category: Cheng, X.]]		[[Category: Cheng, X.]]
-	[[Category: SAM]]
	[[Category: complex (methyltransferase/dna)]]		[[Category: complex (methyltransferase/dna)]]
	[[Category: methyltransferase]]		[[Category: methyltransferase]]
Line 30:		Line 32:
	[[Category: transferase]]		[[Category: transferase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Thu~~ Mar ~~20 19~~:13:47 2008''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:43:17 2008''