3kxw - Revision history

OCA at 07:00, 2 January 2019

OCA — Wed, 02 Jan 2019 07:00:00 GMT

←Older revision		Revision as of 07:00, 2 January 2019
Line 13:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/kx/3kxw_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/kx/3kxw_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>

OCA at 13:44, 11 August 2016

OCA — Thu, 11 Aug 2016 13:44:07 GMT

←Older revision		Revision as of 13:44, 11 August 2016
Line 1:		Line 1:
		+
	==The crystal structure of fatty acid AMP ligase from Legionella pneumophila==		==The crystal structure of fatty acid AMP ligase from Legionella pneumophila==
	<StructureSection load='3kxw' size='340' side='right' caption='[[3kxw]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='3kxw' size='340' side='right' caption='[[3kxw]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3kxw]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Legionella_pneumophila_subsp._pneumophila Legionella pneumophila subsp. pneumophila~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KXW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3KXW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3kxw]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Legph Legph]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KXW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3KXW FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1ZZ:5-O-[(S)-(DODECANOYLOXY)(HYDROXY)PHOSPHORYL]ADENOSINE'>1ZZ</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1ZZ:5-O-[(S)-(DODECANOYLOXY)(HYDROXY)PHOSPHORYL]ADENOSINE'>1ZZ</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">lpg2229 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=~~91891 Legionella pneumophila subsp. pneumophila~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">lpg2229 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=272624 LEGPH])</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=3kxw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kxw OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3kxw RCSB], [http://www.ebi.ac.uk/pdbsum/3kxw 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=3kxw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kxw OCA], [http://pdbe.org/3kxw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3kxw RCSB], [http://www.ebi.ac.uk/pdbsum/3kxw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3kxw ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 16:		Line 17:
	<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=3kxw ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 26:		Line 27:
	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 3kxw" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Legionella pneumophila subsp. pneumophila~~]]	+	[[Category: Legph]]
	[[Category: Burley, S K]]		[[Category: Burley, S K]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]

OCA at 13:35, 6 November 2014

OCA — Thu, 06 Nov 2014 13:35:21 GMT

←Older revision		Revision as of 13:35, 6 November 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_3kxw\| PDB=3kxw \| SCENE= }}~~	+	==The crystal structure of fatty acid AMP ligase from Legionella pneumophila==
-	===The crystal structure of fatty acid AMP ligase from Legionella pneumophila===	+	<StructureSection load='3kxw' size='340' side='right' caption='[[3kxw]], [[Resolution\|resolution]] 1.85Å' scene=''>
-	~~{{ABSTRACT_PUBMED_21185305}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3kxw]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Legionella_pneumophila_subsp._pneumophila Legionella pneumophila subsp. pneumophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KXW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3KXW FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1ZZ:5-O-[(S)-(DODECANOYLOXY)(HYDROXY)PHOSPHORYL]ADENOSINE'>1ZZ</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">lpg2229 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=91891 Legionella pneumophila subsp. pneumophila])</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=3kxw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kxw OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3kxw RCSB], [http://www.ebi.ac.uk/pdbsum/3kxw 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/kx/3kxw_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 ==
		+	Fatty acyl-AMP ligase (FAAL) is a new member of a family of adenylate-forming enzymes that were recently discovered in Mycobacterium tuberculosis. They are similar in sequence to fatty acyl-coenzyme A (CoA) ligases (FACLs). However, while FACLs perform a two-step catalytic reaction, AMP ligation followed by CoA ligation using ATP and CoA as cofactors, FAALs produce only the acyl adenylate and are unable to perform the second step. We report X-ray crystal structures of full-length FAAL from Escherichia coli (EcFAAL) and FAAL from Legionella pneumophila (LpFAAL) bound to acyl adenylate, determined at resolution limits of 3.0 and 1.85 A, respectively. The structures share a larger N-terminal domain and a smaller C-terminal domain, which together resemble the previously determined structures of FAAL and FACL proteins. Our two structures occur in quite different conformations. EcFAAL adopts the adenylate-forming conformation typical of FACLs, whereas LpFAAL exhibits a unique intermediate conformation. Both EcFAAL and LpFAAL have insertion motifs that distinguish them from the FACLs. Structures of EcFAAL and LpFAAL reveal detailed interactions between this insertion motif and the interdomain hinge region and with the C-terminal domain. We suggest that the insertion motifs support sufficient interdomain motions to allow substrate binding and product release during acyl adenylate formation, but they preclude CoA binding, thereby preventing CoA ligation.

-	~~==About this Structure==~~	+	Structural and Functional Studies of Fatty Acyl Adenylate Ligases from E. coli and L. pneumophila.,Zhang Z, Zhou R, Sauder JM, Tonge PJ, Burley SK, Swaminathan S J Mol Biol. 2010 Dec 23. PMID:21185305<ref>PMID:21185305</ref>
-	~~[[3kxw]] is a 1 chain structure with sequence~~ from ~~[http://en~~.~~wikipedia~~.~~org/wiki/Legionella_pneumophila_subsp._pneumophila Legionella~~ pneumophila ~~subsp~~. ~~pneumophila]~~. ~~Full crystallographic information is available from [http~~:/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3KXW OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group="xtra">PMID:021185305</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Legionella pneumophila subsp. pneumophila]]		[[Category: Legionella pneumophila subsp. pneumophila]]
-	[[Category: Burley, S K.]]	+	[[Category: Burley, S K]]
-	[[Category: ~~NYSGXRC, New York SGX Research Center for~~ Structural ~~Genomics.~~]]	+	[[Category: Structural genomic]]
-	[[Category: Swaminathan, S.]]	+	[[Category: Swaminathan, S]]
-	[[Category: Zhang, Z.]]	+	[[Category: Zhang, Z]]
	[[Category: Acyl adenylate]]		[[Category: Acyl adenylate]]
	[[Category: Fatty acid amp ligase]]		[[Category: Fatty acid amp ligase]]
	[[Category: Ligase]]		[[Category: Ligase]]
-	[[Category: New ~~york sgx research center~~ for ~~structural genomic]]~~	+	[[Category: NYSGXRC, New York SGX Research Center for Structural Genomics]]
-	~~[[Category: Nysgxrc~~]]	+	[[Category: PSI, Protein structure initiative]]
-	[[Category: Protein structure initiative]]	+
-	~~[[Category: Psi-2~~]]	+
	[[Category: Sgx]]		[[Category: Sgx]]
-	[[Category: Structural genomic]]

OCA at 20:01, 4 April 2013

OCA — Thu, 04 Apr 2013 20:01:18 GMT

←Older revision		Revision as of 20:01, 4 April 2013
Line 1:		Line 1:
-	[[Image:3kxw.png\|left\|200px]]
-
-	<!--
-	The line below this paragraph, containing "STRUCTURE_3kxw", 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_3kxw\| PDB=3kxw \| SCENE= }}		{{STRUCTURE_3kxw\| PDB=3kxw \| SCENE= }}
-
	===The crystal structure of fatty acid AMP ligase from Legionella pneumophila===		===The crystal structure of fatty acid AMP ligase from Legionella pneumophila===
-
-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_21185305}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 21185305 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_21185305}}		{{ABSTRACT_PUBMED_21185305}}

Line 22:		Line 7:

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~21185305~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:021185305</ref><references group="xtra"/><references/>
	[[Category: Legionella pneumophila subsp. pneumophila]]		[[Category: Legionella pneumophila subsp. pneumophila]]
	[[Category: Burley, S K.]]		[[Category: Burley, S K.]]
Line 28:		Line 13:
	[[Category: Swaminathan, S.]]		[[Category: Swaminathan, S.]]
	[[Category: Zhang, Z.]]		[[Category: Zhang, Z.]]
		+	[[Category: Acyl adenylate]]
		+	[[Category: Fatty acid amp ligase]]
		+	[[Category: Ligase]]
		+	[[Category: New york sgx research center for structural genomic]]
		+	[[Category: Nysgxrc]]
		+	[[Category: Protein structure initiative]]
		+	[[Category: Psi-2]]
		+	[[Category: Sgx]]
		+	[[Category: Structural genomic]]

OCA: Protected "3kxw" [edit=sysop:move=sysop]

OCA — Wed, 12 Jan 2011 04:38:01 GMT

Protected "3kxw" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:38, 12 January 2011

OCA at 04:38, 12 January 2011

OCA — Wed, 12 Jan 2011 04:38:00 GMT

←Older revision		Revision as of 04:38, 12 January 2011
Line 1:		Line 1:
-	~~{{Seed}}~~	+	[[Image:3kxw.png\|left\|200px]]
-	[[Image:3kxw.~~jpg~~\|left\|200px]]	+

	<!--		<!--
Line 12:		Line 11:
	===The crystal structure of fatty acid AMP ligase from Legionella pneumophila===		===The crystal structure of fatty acid AMP ligase from Legionella pneumophila===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_21185305}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 21185305 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_21185305}}

	==About this Structure==		==About this Structure==
-	~~3KXW~~ is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Legionella_pneumophila_subsp._pneumophila Legionella pneumophila subsp. pneumophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KXW OCA].	+	[[3kxw]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Legionella_pneumophila_subsp._pneumophila Legionella pneumophila subsp. pneumophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KXW OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:21185305</ref><references group="xtra"/>
	[[Category: Legionella pneumophila subsp. pneumophila]]		[[Category: Legionella pneumophila subsp. pneumophila]]
	[[Category: Burley, S K.]]		[[Category: Burley, S K.]]
Line 20:		Line 28:
	[[Category: Swaminathan, S.]]		[[Category: Swaminathan, S.]]
	[[Category: Zhang, Z.]]		[[Category: Zhang, Z.]]
-	[[Category: Acyl adenylate]]
-	[[Category: Fatty acid amp ligase]]
-	[[Category: Ligase]]
-	[[Category: New york sgx research center for structural genomic]]
-	[[Category: Nysgxrc]]
-	[[Category: Protein structure initiative]]
-	[[Category: Psi-2]]
-	[[Category: Sgx]]
-	[[Category: Structural genomic]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Mar 17 09:41:59 2010''

OCA at 07:42, 17 March 2010

OCA — Wed, 17 Mar 2010 07:42:00 GMT

←Older revision		Revision as of 07:42, 17 March 2010
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3kxw.jpg\|left\|200px]]

-	The ~~entry 3kxw~~ is ~~ON HOLD~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3kxw", 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_3kxw\| PDB=3kxw \| SCENE= }}

-	~~Authors: Zhang, Z., Burley, S.K., Swaminathan, S., New York SGX Research Center for Structural Genomics (NYSGXRC)~~	+	===The crystal structure of fatty acid AMP ligase from Legionella pneumophila===

-	Description: The crystal structure of fatty acid AMP ligase from Legionella pneumophila

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Mar ~~10 13:~~09:42 2010''	+	==About this Structure==
		+	3KXW is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Legionella_pneumophila_subsp._pneumophila Legionella pneumophila subsp. pneumophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KXW OCA].
		+	[[Category: Legionella pneumophila subsp. pneumophila]]
		+	[[Category: Burley, S K.]]
		+	[[Category: NYSGXRC, New York SGX Research Center for Structural Genomics.]]
		+	[[Category: Swaminathan, S.]]
		+	[[Category: Zhang, Z.]]
		+	[[Category: Acyl adenylate]]
		+	[[Category: Fatty acid amp ligase]]
		+	[[Category: Ligase]]
		+	[[Category: New york sgx research center for structural genomic]]
		+	[[Category: Nysgxrc]]
		+	[[Category: Protein structure initiative]]
		+	[[Category: Psi-2]]
		+	[[Category: Sgx]]
		+	[[Category: Structural genomic]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Mar 17 09:41:59 2010''

OCA at 11:09, 10 March 2010

OCA — Wed, 10 Mar 2010 11:09:43 GMT

←Older revision		Revision as of 11:09, 10 March 2010
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3kxw is ON HOLD ~~until sometime in the future~~	+	The entry 3kxw is ON HOLD

-	Authors: Zhang, Z., Burley, S. K, Swaminathan, S., New York ~~Structural GenomiX~~ Research ~~Consortium~~ (NYSGXRC)	+	Authors: Zhang, Z., Burley, S.K., Swaminathan, S., New York SGX Research Center for Structural Genomics (NYSGXRC)

	Description: The crystal structure of fatty acid AMP ligase from Legionella pneumophila		Description: The crystal structure of fatty acid AMP ligase from Legionella pneumophila

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Dec 16 12~~:38:~~27 2009~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Mar 10 13:09:42 2010''

OCA: New page: '''Unreleased structure''' The entry 3kxw is ON HOLD until sometime in the future Authors: Zhang, Z., Burley, S. K, Swaminathan, S., New York Structural GenomiX Research Consortium (NYS...

OCA — Wed, 16 Dec 2009 10:38:27 GMT

New page: '''Unreleased structure''' The entry 3kxw is ON HOLD until sometime in the future Authors: Zhang, Z., Burley, S. K, Swaminathan, S., New York Structural GenomiX Research Consortium (NYS...

New page

'''Unreleased structure'''

The entry 3kxw is ON HOLD until sometime in the future

Authors: Zhang, Z., Burley, S. K, Swaminathan, S., New York Structural GenomiX Research Consortium (NYSGXRC)

Description: The crystal structure of fatty acid AMP ligase from Legionella pneumophila

''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Dec 16 12:38:27 2009''