1em0 - Revision history

OCA at 07:04, 7 February 2024

2024-02-07T07:04:24Z

←Older revision		Revision as of 07:04, 7 February 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1em0]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EM0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1EM0 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1em0]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EM0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1EM0 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CBR:5-BROMO-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>CBR</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PNI:TETRA[N-METHYL-PYRIDYL]+PORPHYRIN-NICKEL'>PNI</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]] 0.9Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CBR:5-BROMO-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>CBR</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PNI:TETRA[N-METHYL-PYRIDYL]+PORPHYRIN-NICKEL'>PNI</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=1em0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1em0 OCA], [https://pdbe.org/1em0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1em0 RCSB], [https://www.ebi.ac.uk/pdbsum/1em0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1em0 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=1em0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1em0 OCA], [https://pdbe.org/1em0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1em0 RCSB], [https://www.ebi.ac.uk/pdbsum/1em0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1em0 ProSAT]</span></td></tr>
	</table>		</table>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The crystal structure of a B-type DNA hexanucleotide duplex complexed with the porphyrin molecule nickel-[tetra-N-methyl-pyridyl] porphyrin has been solved by multiwavelength anomalous diffraction phasing and refined to an R factor of 11.5% at a resolution of 0.9 A. The structure has been solved and refined as two crystallographically independent duplexes, stacked end to end. Contrary to expectation, the porphyrin molecule is not intercalated into the duplex but is stacked onto the ends of the two-duplex stack. The porphyrin molecule is highly buckled as a consequence of the nickel coordination, which produces large changes in local DNA structure. A second mode of porphyrin binding is apparent as a consequence of crystal packing, which places the ligand in the minor groove of an adjacent duplex. This structure thus provides, to our knowledge, the first atomic visualization of minor-groove binding for a porphyrin molecule. The geometry of groove binding provides a ready explanation for porphyrin-induced DNA strand cleavage at deoxyribose residues.
-
-	A DNA-porphyrin minor-groove complex at atomic resolution: the structural consequences of porphyrin ruffling.,Bennett M, Krah A, Wien F, Garman E, McKenna R, Sanderson M, Neidle S Proc Natl Acad Sci U S A. 2000 Aug 15;97(17):9476-81. PMID:10920199<ref>PMID:10920199</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1em0" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 10:23, 21 December 2022

2022-12-21T10:23:59Z

←Older revision		Revision as of 10:23, 21 December 2022
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1em0]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EM0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1EM0 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1em0]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EM0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1EM0 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PNI:TETRA[N-METHYL-PYRIDYL]+PORPHYRIN-NICKEL'>PNI~~</scene></td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CBR:5-BROMO-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>CBR</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PNI:TETRA[N-METHYL-PYRIDYL]+PORPHYRIN-NICKEL'>PNI</scene></td></tr>
-	~~<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CBR:5-BROMO-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>CBR~~</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=1em0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1em0 OCA], [https://pdbe.org/1em0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1em0 RCSB], [https://www.ebi.ac.uk/pdbsum/1em0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1em0 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=1em0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1em0 OCA], [https://pdbe.org/1em0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1em0 RCSB], [https://www.ebi.ac.uk/pdbsum/1em0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1em0 ProSAT]</span></td></tr>
	</table>		</table>
Line 22:		Line 21:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Bennett, M]]	+	[[Category: Bennett M]]
-	[[Category: Garman, E]]	+	[[Category: Garman E]]
-	[[Category: Krah, A]]	+	[[Category: Krah A]]
-	[[Category: McKenna, R]]	+	[[Category: McKenna R]]
-	[[Category: Neidle, S]]	+	[[Category: Neidle S]]
-	[[Category: Sanderson, M]]	+	[[Category: Sanderson M]]
-	[[Category: Wien, F]]	+	[[Category: Wien F]]
-	~~[[Category: Dna]]~~	+
-	~~[[Category: Dna distortion]]~~	+
-	~~[[Category: Groove binding]]~~	+
-	~~[[Category: Porphyrin]]~~	+
-	~~[[Category: Ruffling~~]]	+

OCA at 07:13, 17 March 2021

2021-03-17T07:13:07Z

←Older revision		Revision as of 07:13, 17 March 2021
Line 3:		Line 3:
	<StructureSection load='1em0' size='340' side='right'caption='[[1em0]], [[Resolution\|resolution]] 0.90Å' scene=''>		<StructureSection load='1em0' size='340' side='right'caption='[[1em0]], [[Resolution\|resolution]] 0.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1em0]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EM0 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1EM0 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1em0]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EM0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1EM0 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PNI:TETRA[N-METHYL-PYRIDYL]+PORPHYRIN-NICKEL'>PNI</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PNI:TETRA[N-METHYL-PYRIDYL]+PORPHYRIN-NICKEL'>PNI</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CBR:5-BROMO-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>CBR</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CBR:5-BROMO-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>CBR</scene></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=1em0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1em0 OCA], [~~http~~://pdbe.org/1em0 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1em0 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1em0 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1em0 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=1em0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1em0 OCA], [https://pdbe.org/1em0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1em0 RCSB], [https://www.ebi.ac.uk/pdbsum/1em0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1em0 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 07:25, 12 June 2019

2019-06-12T07:25:07Z

←Older revision		Revision as of 07:25, 12 June 2019
Line 1:		Line 1:

	==COMPLEX OF D(CCTAGG) WITH TETRA-[N-METHYL-PYRIDYL] PORPHYRIN==		==COMPLEX OF D(CCTAGG) WITH TETRA-[N-METHYL-PYRIDYL] PORPHYRIN==
-	<StructureSection load='1em0' size='340' side='right' caption='[[1em0]], [[Resolution\|resolution]] 0.90Å' scene=''>	+	<StructureSection load='1em0' size='340' side='right'caption='[[1em0]], [[Resolution\|resolution]] 0.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1em0]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EM0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1EM0 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1em0]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EM0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1EM0 FirstGlance]. <br>
Line 21:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Bennett, M]]		[[Category: Bennett, M]]
	[[Category: Garman, E]]		[[Category: Garman, E]]

OCA at 04:02, 6 September 2017

2017-09-06T04:02:42Z

←Older revision		Revision as of 04:02, 6 September 2017
Line 1:		Line 1:
		+
	==COMPLEX OF D(CCTAGG) WITH TETRA-[N-METHYL-PYRIDYL] PORPHYRIN==		==COMPLEX OF D(CCTAGG) WITH TETRA-[N-METHYL-PYRIDYL] PORPHYRIN==
	<StructureSection load='1em0' size='340' side='right' caption='[[1em0]], [[Resolution\|resolution]] 0.90Å' scene=''>		<StructureSection load='1em0' size='340' side='right' caption='[[1em0]], [[Resolution\|resolution]] 0.90Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PNI:TETRA[N-METHYL-PYRIDYL]+PORPHYRIN-NICKEL'>PNI</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PNI:TETRA[N-METHYL-PYRIDYL]+PORPHYRIN-NICKEL'>PNI</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CBR:5-BROMO-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>CBR</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CBR:5-BROMO-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>CBR</scene></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=1em0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1em0 OCA], [http://pdbe.org/1em0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1em0 RCSB], [http://www.ebi.ac.uk/pdbsum/1em0 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=1em0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1em0 OCA], [http://pdbe.org/1em0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1em0 RCSB], [http://www.ebi.ac.uk/pdbsum/1em0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1em0 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 06:44, 10 September 2015

2015-09-10T06:44:44Z

←Older revision		Revision as of 06:44, 10 September 2015
Line 5:		Line 5:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PNI:TETRA[N-METHYL-PYRIDYL]+PORPHYRIN-NICKEL'>PNI</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PNI:TETRA[N-METHYL-PYRIDYL]+PORPHYRIN-NICKEL'>PNI</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CBR:5-BROMO-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>CBR</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CBR:5-BROMO-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>CBR</scene></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=1em0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1em0 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1em0 RCSB], [http://www.ebi.ac.uk/pdbsum/1em0 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=1em0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1em0 OCA], [http://pdbe.org/1em0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1em0 RCSB], [http://www.ebi.ac.uk/pdbsum/1em0 PDBsum]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 15:		Line 15:
	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 1em0" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 21:43, 22 December 2014

2014-12-22T21:43:43Z

←Older revision		Revision as of 21:43, 22 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1em0]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EM0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1EM0 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1em0]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EM0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1EM0 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PNI:TETRA[N-METHYL-PYRIDYL]+PORPHYRIN-NICKEL'>PNI</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PNI:TETRA[N-METHYL-PYRIDYL]+PORPHYRIN-NICKEL'>PNI</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CBR:5-BROMO-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>CBR</scene></td></tr>	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CBR:5-BROMO-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>CBR</scene></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=1em0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1em0 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1em0 RCSB], [http://www.ebi.ac.uk/pdbsum/1em0 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=1em0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1em0 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1em0 RCSB], [http://www.ebi.ac.uk/pdbsum/1em0 PDBsum]</span></td></tr>
-	<table>	+	</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 19:		Line 19:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Bennett, M.]]	+	[[Category: Bennett, M]]
-	[[Category: Garman, E.]]	+	[[Category: Garman, E]]
-	[[Category: Krah, A.]]	+	[[Category: Krah, A]]
-	[[Category: McKenna, R.]]	+	[[Category: McKenna, R]]
-	[[Category: Neidle, S.]]	+	[[Category: Neidle, S]]
-	[[Category: Sanderson, M.]]	+	[[Category: Sanderson, M]]
-	[[Category: Wien, F.]]	+	[[Category: Wien, F]]
	[[Category: Dna]]		[[Category: Dna]]
	[[Category: Dna distortion]]		[[Category: Dna distortion]]

OCA at 11:32, 24 September 2014

2014-09-24T11:32:31Z

←Older revision		Revision as of 11:32, 24 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1em0.~~png~~\|~~left~~\|~~200px~~]]	+	==COMPLEX OF D(CCTAGG) WITH TETRA-[N-METHYL-PYRIDYL] PORPHYRIN==
		+	<StructureSection load='1em0' size='340' side='right' caption='[[1em0]], [[Resolution\|resolution]] 0.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1em0]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EM0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1EM0 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PNI:TETRA[N-METHYL-PYRIDYL]+PORPHYRIN-NICKEL'>PNI</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CBR:5-BROMO-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>CBR</scene></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=1em0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1em0 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1em0 RCSB], [http://www.ebi.ac.uk/pdbsum/1em0 PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The crystal structure of a B-type DNA hexanucleotide duplex complexed with the porphyrin molecule nickel-[tetra-N-methyl-pyridyl] porphyrin has been solved by multiwavelength anomalous diffraction phasing and refined to an R factor of 11.5% at a resolution of 0.9 A. The structure has been solved and refined as two crystallographically independent duplexes, stacked end to end. Contrary to expectation, the porphyrin molecule is not intercalated into the duplex but is stacked onto the ends of the two-duplex stack. The porphyrin molecule is highly buckled as a consequence of the nickel coordination, which produces large changes in local DNA structure. A second mode of porphyrin binding is apparent as a consequence of crystal packing, which places the ligand in the minor groove of an adjacent duplex. This structure thus provides, to our knowledge, the first atomic visualization of minor-groove binding for a porphyrin molecule. The geometry of groove binding provides a ready explanation for porphyrin-induced DNA strand cleavage at deoxyribose residues.

-	~~{{STRUCTURE_1em0\| PDB=1em0 \| SCENE= }}~~	+	A DNA-porphyrin minor-groove complex at atomic resolution: the structural consequences of porphyrin ruffling.,Bennett M, Krah A, Wien F, Garman E, McKenna R, Sanderson M, Neidle S Proc Natl Acad Sci U S A. 2000 Aug 15;97(17):9476-81. PMID:10920199<ref>PMID:10920199</ref>

-	~~===COMPLEX OF D(CCTAGG) WITH TETRA-[N-METHYL-PYRIDYL] PORPHYRIN===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-		+	== References ==
-	==~~About this Structure~~==	+	<references/>
-	~~[[1em0]] is a 4 chain structure. Full crystallographic information is available from [http:~~//~~oca.weizmann.ac.il/oca-bin/ocashort?id=1EM0 OCA].~~	+	__TOC__
		+	</StructureSection>
	[[Category: Bennett, M.]]		[[Category: Bennett, M.]]
	[[Category: Garman, E.]]		[[Category: Garman, E.]]

OCA: Protected "1em0" [edit=sysop:move=sysop]

2012-11-08T14:45:47Z

Protected "1em0" [edit=sysop:move=sysop]

←Older revision

Revision as of 14:45, 8 November 2012

OCA at 14:45, 8 November 2012

2012-11-08T14:45:45Z

←Older revision		Revision as of 14:45, 8 November 2012
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	[[Image:1em0.png\|left\|200px]]		[[Image:1em0.png\|left\|200px]]

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	{{STRUCTURE_1em0\| PDB=1em0 \| SCENE= }}		{{STRUCTURE_1em0\| PDB=1em0 \| SCENE= }}

	===COMPLEX OF D(CCTAGG) WITH TETRA-[N-METHYL-PYRIDYL] PORPHYRIN===		===COMPLEX OF D(CCTAGG) WITH TETRA-[N-METHYL-PYRIDYL] PORPHYRIN===

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	==About this Structure==		==About this Structure==
-	Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EM0 OCA].	+	[[1em0]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EM0 OCA].
-		+
-	~~==Reference==~~	+
-	A DNA-porphyrin minor-groove complex at atomic resolution: the structural consequences of porphyrin ruffling., Bennett M, Krah A, Wien F, Garman E, McKenna R, Sanderson M, Neidle S, Proc Natl Acad Sci U S A. 2000 Aug 15;97(17):9476-81. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/10920199 10920199]	+
	[[Category: Bennett, M.]]		[[Category: Bennett, M.]]
	[[Category: Garman, E.]]		[[Category: Garman, E.]]
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	[[Category: Sanderson, M.]]		[[Category: Sanderson, M.]]
	[[Category: Wien, F.]]		[[Category: Wien, F.]]
		+	[[Category: Dna]]
	[[Category: Dna distortion]]		[[Category: Dna distortion]]
	[[Category: Groove binding]]		[[Category: Groove binding]]
	[[Category: Porphyrin]]		[[Category: Porphyrin]]
	[[Category: Ruffling]]		[[Category: Ruffling]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 1 00:57:58 2008''