7dzl - Revision history

OCA at 16:43, 29 November 2023

OCA — Wed, 29 Nov 2023 16:43:44 GMT

←Older revision		Revision as of 16:43, 29 November 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7dzl]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7DZL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7DZL FirstGlance]. <br>		<table><tr><td colspan='2'>[[7dzl]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7DZL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7DZL FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HP9:(2S)-2-azanyl-3-(7-fluoranyl-9-oxidanylidene-xanthen-2-yl)propanoic+acid'>HP9</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</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]] 1.64Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HP9:(2S)-2-azanyl-3-(7-fluoranyl-9-oxidanylidene-xanthen-2-yl)propanoic+acid'>HP9</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</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=7dzl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7dzl OCA], [https://pdbe.org/7dzl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7dzl RCSB], [https://www.ebi.ac.uk/pdbsum/7dzl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7dzl 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=7dzl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7dzl OCA], [https://pdbe.org/7dzl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7dzl RCSB], [https://www.ebi.ac.uk/pdbsum/7dzl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7dzl ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/FABPL_HUMAN FABPL_HUMAN]] Binds free fatty acids and their coenzyme A derivatives, bilirubin, and some other small molecules in the cytoplasm. May be involved in intracellular lipid transport.	+	[https://www.uniprot.org/uniprot/FABPL_HUMAN FABPL_HUMAN] Binds free fatty acids and their coenzyme A derivatives, bilirubin, and some other small molecules in the cytoplasm. May be involved in intracellular lipid transport.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 18:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 7dzl" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 7dzl" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Fatty acid-binding protein 3D structures\|Fatty acid-binding protein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 18:53, 7 September 2022

OCA — Wed, 07 Sep 2022 18:53:46 GMT

←Older revision		Revision as of 18:53, 7 September 2022
Line 9:		Line 9:
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/FABPL_HUMAN FABPL_HUMAN]] Binds free fatty acids and their coenzyme A derivatives, bilirubin, and some other small molecules in the cytoplasm. May be involved in intracellular lipid transport.		[[https://www.uniprot.org/uniprot/FABPL_HUMAN FABPL_HUMAN]] Binds free fatty acids and their coenzyme A derivatives, bilirubin, and some other small molecules in the cytoplasm. May be involved in intracellular lipid transport.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	One of the primary objectives in chemistry research is to observe atomic motions during reactions in real time. Although X-ray free-electron lasers (XFELs) have facilitated the capture of reaction intermediates using time-resolved serial femtosecond crystallography (TR-SFX), only a few natural photoactive proteins have been investigated using this method, mostly due to the lack of suitable phototriggers. Here we report the genetic encoding of a xanthone amino acid (FXO), as an efficient phototrigger, into a rationally designed human liver fatty-acid binding protein mutant (termed XOM), which undergoes photo-induced C-H bond transformation with high selectivity and quantum efficiency. We solved the structures of XOM before and 10-300 ns after flash illumination, at 1.55-1.70 A resolutions, and captured the elusive excited-state intermediates responsible for precise C-H bond activation. We expect that most redox enzymes can now be investigated by TR-SFX, using our method, to reveal reaction intermediates key for their efficiency and selectivity.
		+
		+	Excited-state intermediates in a designer protein encoding a phototrigger caught by an X-ray free-electron laser.,Liu X, Liu P, Li H, Xu Z, Jia L, Xia Y, Yu M, Tang W, Zhu X, Chen C, Zhang Y, Nango E, Tanaka R, Luo F, Kato K, Nakajima Y, Kishi S, Yu H, Matsubara N, Owada S, Tono K, Iwata S, Yu LJ, Shen JR, Wang J Nat Chem. 2022 Jul 18. pii: 10.1038/s41557-022-00992-3. doi:, 10.1038/s41557-022-00992-3. PMID:35851837<ref>PMID:35851837</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7dzl" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 16:46, 7 September 2022

OCA — Wed, 07 Sep 2022 16:46:42 GMT

←Older revision		Revision as of 16:46, 7 September 2022
Line 3:		Line 3:
	<StructureSection load='7dzl' size='340' side='right'caption='[[7dzl]], [[Resolution\|resolution]] 1.64Å' scene=''>		<StructureSection load='7dzl' size='340' side='right'caption='[[7dzl]], [[Resolution\|resolution]] 1.64Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7dzl]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7DZL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7DZL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7dzl]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7DZL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7DZL FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=~~PLM~~:~~PALMITIC~~+~~ACID~~'>~~PLM~~</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HP9:(2S)-2-azanyl-3-(7-fluoranyl-9-oxidanylidene-xanthen-2-yl)propanoic+acid'>HP9</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene></td></tr>
-	~~<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=~~HP9~~:'>~~HP9~~</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=7dzl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7dzl OCA], [https://pdbe.org/7dzl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7dzl RCSB], [https://www.ebi.ac.uk/pdbsum/7dzl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7dzl 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=7dzl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7dzl OCA], [https://pdbe.org/7dzl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7dzl RCSB], [https://www.ebi.ac.uk/pdbsum/7dzl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7dzl ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/FABPL_HUMAN FABPL_HUMAN]] Binds free fatty acids and their coenzyme A derivatives, bilirubin, and some other small molecules in the cytoplasm. May be involved in intracellular lipid transport.	+	[[https://www.uniprot.org/uniprot/FABPL_HUMAN FABPL_HUMAN]] Binds free fatty acids and their coenzyme A derivatives, bilirubin, and some other small molecules in the cytoplasm. May be involved in intracellular lipid transport.
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	One of the primary objectives in chemistry research is to observe atomic motions during reactions in real time. Although X-ray free-electron lasers (XFELs) have facilitated the capture of reaction intermediates using time-resolved serial femtosecond crystallography (TR-SFX), only a few natural photoactive proteins have been investigated using this method, mostly due to the lack of suitable phototriggers. Here we report the genetic encoding of a xanthone amino acid (FXO), as an efficient phototrigger, into a rationally designed human liver fatty-acid binding protein mutant (termed XOM), which undergoes photo-induced C-H bond transformation with high selectivity and quantum efficiency. We solved the structures of XOM before and 10-300 ns after flash illumination, at 1.55-1.70 A resolutions, and captured the elusive excited-state intermediates responsible for precise C-H bond activation. We expect that most redox enzymes can now be investigated by TR-SFX, using our method, to reveal reaction intermediates key for their efficiency and selectivity.	+
-		+
-	Excited-state intermediates in a designer protein encoding a phototrigger caught by an X-ray free-electron laser.,Liu X, Liu P, Li H, Xu Z, Jia L, Xia Y, Yu M, Tang W, Zhu X, Chen C, Zhang Y, Nango E, Tanaka R, Luo F, Kato K, Nakajima Y, Kishi S, Yu H, Matsubara N, Owada S, Tono K, Iwata S, Yu LJ, Shen JR, Wang J Nat Chem. 2022 Jul 18. pii: 10.1038/s41557-022-00992-3. doi:, 10.1038/s41557-022-00992-3. PMID:35851837<ref>PMID:35851837</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 7dzl" style="background-color:#fffaf0;"></div>~~	+
-	~~== References ==~~	+
-	~~<references/>~~	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Li, H]]	+	[[Category: Li H]]
-	[[Category: Liu, X]]	+	[[Category: Liu X]]
-	[[Category: Shen, J R]]	+	[[Category: Shen J-R]]
-	[[Category: Wang, J]]	+	[[Category: Wang J]]
-	[[Category: Yu, L J]]	+	[[Category: Yu L-J]]
-	~~[[Category: Fabp]]~~	+
-	~~[[Category: Recombination~~]]	+

OCA at 06:31, 18 August 2022

OCA — Thu, 18 Aug 2022 06:31:24 GMT

←Older revision		Revision as of 06:31, 18 August 2022
Line 1:		Line 1:

	==A69C-M71L mutant of Fabp protein==		==A69C-M71L mutant of Fabp protein==
-	<StructureSection load='7dzl' size='340' side='right'caption='[[7dzl]]' scene=''>	+	<StructureSection load='7dzl' size='340' side='right'caption='[[7dzl]], [[Resolution\|resolution]] 1.64Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7DZL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7DZL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7dzl]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7DZL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7DZL FirstGlance]. <br>
-	</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=7dzl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7dzl OCA], [https://pdbe.org/7dzl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7dzl RCSB], [https://www.ebi.ac.uk/pdbsum/7dzl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7dzl ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=HP9:'>HP9</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=7dzl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7dzl OCA], [https://pdbe.org/7dzl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7dzl RCSB], [https://www.ebi.ac.uk/pdbsum/7dzl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7dzl ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[https://www.uniprot.org/uniprot/FABPL_HUMAN FABPL_HUMAN]] Binds free fatty acids and their coenzyme A derivatives, bilirubin, and some other small molecules in the cytoplasm. May be involved in intracellular lipid transport.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	One of the primary objectives in chemistry research is to observe atomic motions during reactions in real time. Although X-ray free-electron lasers (XFELs) have facilitated the capture of reaction intermediates using time-resolved serial femtosecond crystallography (TR-SFX), only a few natural photoactive proteins have been investigated using this method, mostly due to the lack of suitable phototriggers. Here we report the genetic encoding of a xanthone amino acid (FXO), as an efficient phototrigger, into a rationally designed human liver fatty-acid binding protein mutant (termed XOM), which undergoes photo-induced C-H bond transformation with high selectivity and quantum efficiency. We solved the structures of XOM before and 10-300 ns after flash illumination, at 1.55-1.70 A resolutions, and captured the elusive excited-state intermediates responsible for precise C-H bond activation. We expect that most redox enzymes can now be investigated by TR-SFX, using our method, to reveal reaction intermediates key for their efficiency and selectivity.
		+
		+	Excited-state intermediates in a designer protein encoding a phototrigger caught by an X-ray free-electron laser.,Liu X, Liu P, Li H, Xu Z, Jia L, Xia Y, Yu M, Tang W, Zhu X, Chen C, Zhang Y, Nango E, Tanaka R, Luo F, Kato K, Nakajima Y, Kishi S, Yu H, Matsubara N, Owada S, Tono K, Iwata S, Yu LJ, Shen JR, Wang J Nat Chem. 2022 Jul 18. pii: 10.1038/s41557-022-00992-3. doi:, 10.1038/s41557-022-00992-3. PMID:35851837<ref>PMID:35851837</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7dzl" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Li H]]	+	[[Category: Li, H]]
-	[[Category: Liu X]]	+	[[Category: Liu, X]]
-	[[Category: Shen J-R]]	+	[[Category: Shen, J R]]
-	[[Category: Wang J]]	+	[[Category: Wang, J]]
-	[[Category: Yu L-J]]	+	[[Category: Yu, L J]]
		+	[[Category: Fabp]]
		+	[[Category: Recombination]]

OCA at 17:59, 27 July 2022

OCA — Wed, 27 Jul 2022 17:59:05 GMT

←Older revision		Revision as of 17:59, 27 July 2022
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 7dzl is ~~ON HOLD until Paper Publication~~	+	==A69C-M71L mutant of Fabp protein==
-		+	<StructureSection load='7dzl' size='340' side='right'caption='[[7dzl]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7DZL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7DZL FirstGlance]. <br>
-	~~Description~~:	+	</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=7dzl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7dzl OCA], [https://pdbe.org/7dzl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7dzl RCSB], [https://www.ebi.ac.uk/pdbsum/7dzl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7dzl ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Li H]]
		+	[[Category: Liu X]]
		+	[[Category: Shen J-R]]
		+	[[Category: Wang J]]
		+	[[Category: Yu L-J]]

OCA at 05:31, 24 February 2021

OCA — Wed, 24 Feb 2021 05:31:58 GMT

←Older revision		Revision as of 05:31, 24 February 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7dzl is ON HOLD	+	The entry 7dzl is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "7dzl" [edit=sysop:move=sysop]

OCA — Wed, 03 Feb 2021 09:20:34 GMT

Protected "7dzl" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:20, 3 February 2021

OCA: New page: '''Unreleased structure''' The entry 7dzl is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 03 Feb 2021 09:20:32 GMT

New page: '''Unreleased structure''' The entry 7dzl is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7dzl is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]