4i9d - Revision history

OCA at 18:40, 11 August 2016

OCA — Thu, 11 Aug 2016 18:40:08 GMT

←Older revision		Revision as of 18:40, 11 August 2016
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		+
	==X-ray structure of NikA in complex with Fe-N,N'-Bis(2-pyridylmethyl)-N-carboxymethyl-N'-methyl==		==X-ray structure of NikA in complex with Fe-N,N'-Bis(2-pyridylmethyl)-N-carboxymethyl-N'-methyl==
	<StructureSection load='4i9d' size='340' side='right' caption='[[4i9d]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='4i9d' size='340' side='right' caption='[[4i9d]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4i9d]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Escherichia_coli_bl21(de3) Escherichia coli bl21(de3)~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4I9D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4I9D FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4i9d]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecobd Ecobd]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4I9D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4I9D FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=L4D:{(S)-N-(2-{METHYL[(PYRIDIN-2-YL-KAPPAN)METHYL]AMINO-KAPPAN}ETHYL)-N-[(PYRIDIN-2-YL-KAPPAN)METHYL]GLYCINATO-KAPPA~2~N,O}IRON(2+)'>L4D</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=L4D:{(S)-N-(2-{METHYL[(PYRIDIN-2-YL-KAPPAN)METHYL]AMINO-KAPPAN}ETHYL)-N-[(PYRIDIN-2-YL-KAPPAN)METHYL]GLYCINATO-KAPPA~2~N,O}IRON(2+)'>L4D</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4dcx\|4dcx]], [[4dcy\|4dcy]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4dcx\|4dcx]], [[4dcy\|4dcy]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">b3476, JW3441, nikA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=469008 ~~Escherichia coli BL21(DE3)~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">b3476, JW3441, nikA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=469008 ECOBD])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Nickel-transporting_ATPase Nickel-transporting ATPase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.3.24 3.6.3.24] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Nickel-transporting_ATPase Nickel-transporting ATPase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.3.24 3.6.3.24] </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=4i9d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4i9d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4i9d RCSB], [http://www.ebi.ac.uk/pdbsum/4i9d 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=4i9d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4i9d OCA], [http://pdbe.org/4i9d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4i9d RCSB], [http://www.ebi.ac.uk/pdbsum/4i9d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4i9d ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/NIKA_ECOLI NIKA_ECOLI]] Involved in a nickel transport system, probably represents the nickel binder.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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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 4i9d" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Ecobd]]
	[[Category: Nickel-transporting ATPase]]		[[Category: Nickel-transporting ATPase]]
	[[Category: Amara, P]]		[[Category: Amara, P]]

OCA at 13:35, 4 January 2015

OCA — Sun, 04 Jan 2015 13:35:44 GMT

←Older revision		Revision as of 13:35, 4 January 2015
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-	~~{{STRUCTURE_4i9d\| PDB=4i9d \| SCENE= }}~~	+	==X-ray structure of NikA in complex with Fe-N,N'-Bis(2-pyridylmethyl)-N-carboxymethyl-N'-methyl==
-	===X-ray structure of NikA in complex with Fe-N,N'-Bis(2-pyridylmethyl)-N-carboxymethyl-N'-methyl===	+	<StructureSection load='4i9d' size='340' side='right' caption='[[4i9d]], [[Resolution\|resolution]] 1.70Å' scene=''>
-	{{~~ABSTRACT_PUBMED_23440925~~}}	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4i9d]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli_bl21(de3) Escherichia coli bl21(de3)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4I9D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4I9D FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=L4D:{(S)-N-(2-{METHYL[(PYRIDIN-2-YL-KAPPAN)METHYL]AMINO-KAPPAN}ETHYL)-N-[(PYRIDIN-2-YL-KAPPAN)METHYL]GLYCINATO-KAPPA~2~N,O}IRON(2+)'>L4D</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4dcx\|4dcx]], [[4dcy\|4dcy]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">b3476, JW3441, nikA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=469008 Escherichia coli BL21(DE3)])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Nickel-transporting_ATPase Nickel-transporting ATPase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.3.24 3.6.3.24] </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=4i9d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4i9d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4i9d RCSB], [http://www.ebi.ac.uk/pdbsum/4i9d PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The substrate for an artificial iron monooxygenase was selected by using docking calculations. The high catalytic efficiency of the reported enzyme for sulfide oxidation was directly correlated to the predicted substrate binding mode in the protein cavity, thus illustrating the synergetic effect of the substrate binding site, protein scaffold, and catalytic site.

-	~~==About this Structure==~~	+	An artificial oxygenase built from scratch: substrate binding site identified using a docking approach.,Esmieu C, Cherrier MV, Amara P, Girgenti E, Marchi-Delapierre C, Oddon F, Iannello M, Jorge-Robin A, Cavazza C, Menage S Angew Chem Int Ed Engl. 2013 Apr 2;52(14):3922-5. doi: 10.1002/anie.201209021., Epub 2013 Feb 25. PMID:23440925<ref>PMID:23440925</ref>
-	~~[[4i9d]] is a 2 chain structure with sequence~~ from ~~[http~~:~~//en~~.~~wikipedia~~.~~org/wiki/Escherichia_coli_bl21~~(~~de3~~) ~~Escherichia coli bl21(de3)]~~. ~~Full crystallographic information is available from [http~~:/~~/oca~~.~~weizmann~~.ac.il/~~oca-bin~~/~~ocashort?id=4I9D OCA]~~.	+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Nickel-transporting ATPase]]		[[Category: Nickel-transporting ATPase]]
-	[[Category: Amara, P.]]	+	[[Category: Amara, P]]
-	[[Category: Cavazza, C.]]	+	[[Category: Cavazza, C]]
-	[[Category: Cherrier, M V.]]	+	[[Category: Cherrier, M V]]
-	[[Category: Iannello, M.]]	+	[[Category: Iannello, M]]
	[[Category: Metal transport]]		[[Category: Metal transport]]
	[[Category: Protein-bound iron complex]]		[[Category: Protein-bound iron complex]]
	[[Category: Transport protein]]		[[Category: Transport protein]]

OCA at 20:24, 17 April 2013

OCA — Wed, 17 Apr 2013 20:24:15 GMT

←Older revision		Revision as of 20:24, 17 April 2013
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-	~~'''Unreleased~~ structure'''	+	{{STRUCTURE_4i9d\| PDB=4i9d \| SCENE= }}
		+	===X-ray structure of NikA in complex with Fe-N,N'-Bis(2-pyridylmethyl)-N-carboxymethyl-N'-methyl===
		+	{{ABSTRACT_PUBMED_23440925}}

-	~~The entry~~ 4i9d is ~~ON HOLD until Paper Publication~~	+	==About this Structure==
-		+	[[4i9d]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli_bl21(de3) Escherichia coli bl21(de3)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4I9D OCA].
-	~~Authors~~: ~~Cherrier, M~~.V., Amara, P., ~~Iannello~~, M., ~~Cavazza, C~~.	+	[[Category: Nickel-transporting ATPase]]
-		+	[[Category: Amara, P.]]
-	~~Description~~: X-~~ray structure of NikA in~~ complex ~~with Fe-N,N'-Bis(2-pyridylmethyl)-N-carboxymethyl-N'-methyl~~	+	[[Category: Cavazza, C.]]
		+	[[Category: Cherrier, M V.]]
		+	[[Category: Iannello, M.]]
		+	[[Category: Metal transport]]
		+	[[Category: Protein-bound iron complex]]
		+	[[Category: Transport protein]]

OCA at 08:54, 2 January 2013

OCA — Wed, 02 Jan 2013 08:54:14 GMT

←Older revision		Revision as of 08:54, 2 January 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4i9d is ON HOLD	+	The entry 4i9d is ON HOLD until Paper Publication

	Authors: Cherrier, M.V., Amara, P., Iannello, M., Cavazza, C.		Authors: Cherrier, M.V., Amara, P., Iannello, M., Cavazza, C.

	Description: X-ray structure of NikA in complex with Fe-N,N'-Bis(2-pyridylmethyl)-N-carboxymethyl-N'-methyl		Description: X-ray structure of NikA in complex with Fe-N,N'-Bis(2-pyridylmethyl)-N-carboxymethyl-N'-methyl

OCA: Protected "4i9d" [edit=sysop:move=sysop]

OCA — Wed, 12 Dec 2012 20:51:31 GMT

Protected "4i9d" [edit=sysop:move=sysop]

←Older revision

Revision as of 20:51, 12 December 2012

OCA: New page: '''Unreleased structure''' The entry 4i9d is ON HOLD Authors: Cherrier, M.V., Amara, P., Iannello, M., Cavazza, C. Description: X-ray structure of NikA in complex with Fe-N,N'-Bis(2-py...

OCA — Wed, 12 Dec 2012 20:51:30 GMT

New page: '''Unreleased structure''' The entry 4i9d is ON HOLD Authors: Cherrier, M.V., Amara, P., Iannello, M., Cavazza, C. Description: X-ray structure of NikA in complex with Fe-N,N'-Bis(2-py...

New page

'''Unreleased structure'''

The entry 4i9d is ON HOLD

Authors: Cherrier, M.V., Amara, P., Iannello, M., Cavazza, C.

Description: X-ray structure of NikA in complex with Fe-N,N'-Bis(2-pyridylmethyl)-N-carboxymethyl-N'-methyl