6qpd - Revision history

OCA at 12:05, 24 January 2024

OCA — Wed, 24 Jan 2024 12:05:30 GMT

←Older revision		Revision as of 12:05, 24 January 2024
Line 3:		Line 3:
	<StructureSection load='6qpd' size='340' side='right'caption='[[6qpd]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='6qpd' size='340' side='right'caption='[[6qpd]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6qpd]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Bovin Bovin~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QPD OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6QPD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6qpd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QPD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6QPD FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>~~, ~~<scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 2Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~LGB ([http~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=9913 BOVIN])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=6qpd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qpd OCA], [~~http~~://pdbe.org/6qpd PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6qpd RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6qpd PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6qpd 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=6qpd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qpd OCA], [https://pdbe.org/6qpd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6qpd RCSB], [https://www.ebi.ac.uk/pdbsum/6qpd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6qpd ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/LACB_BOVIN LACB_BOVIN]] Primary component of whey, it binds retinol and is probably involved in the transport of that molecule.	+	[https://www.uniprot.org/uniprot/LACB_BOVIN LACB_BOVIN] Primary component of whey, it binds retinol and is probably involved in the transport of that molecule.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 26:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bovin~~]]	+	[[Category: Bos taurus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Kaczor, K]]	+	[[Category: Kaczor K]]
-	[[Category: Leiwnski, K]]	+	[[Category: Leiwnski K]]
-	[[Category: Loch~~, J I]]~~	+	[[Category: Loch JI]]
-	~~[[Category: Lipocalin]]~~	+
-	~~[[Category: Mutation]]~~	+
-	~~[[Category: Transport protein~~]]	+

OCA at 07:03, 29 April 2020

OCA — Wed, 29 Apr 2020 07:03:46 GMT

←Older revision		Revision as of 07:03, 29 April 2020
Line 3:		Line 3:
	<StructureSection load='6qpd' size='340' side='right'caption='[[6qpd]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='6qpd' size='340' side='right'caption='[[6qpd]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6qpd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bovin Bovin]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QPD OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6QPD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6qpd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bovin Bovin]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QPD OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6QPD FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</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" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">LGB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9913 BOVIN])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">LGB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9913 BOVIN])</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=6qpd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qpd OCA], [http://pdbe.org/6qpd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6qpd RCSB], [http://www.ebi.ac.uk/pdbsum/6qpd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6qpd ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6qpd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qpd OCA], [http://pdbe.org/6qpd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6qpd RCSB], [http://www.ebi.ac.uk/pdbsum/6qpd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6qpd ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 10:38, 27 March 2020

OCA — Fri, 27 Mar 2020 10:38:20 GMT

←Older revision		Revision as of 10:38, 27 March 2020
Line 1:		Line 1:

	==Engineered beta-lactoglobulin: variant I56F==		==Engineered beta-lactoglobulin: variant I56F==
-	<StructureSection load='6qpd' size='340' side='right' caption='[[6qpd]], [[Resolution\|resolution]] 2.00Å' scene=''>	+	<StructureSection load='6qpd' size='340' side='right'caption='[[6qpd]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6qpd]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QPD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6QPD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6qpd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bovin Bovin]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QPD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6QPD FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</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=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">LGB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9913 BOVIN])</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=6qpd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qpd OCA], [http://pdbe.org/6qpd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6qpd RCSB], [http://www.ebi.ac.uk/pdbsum/6qpd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6qpd ProSAT]</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=6qpd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qpd OCA], [http://pdbe.org/6qpd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6qpd RCSB], [http://www.ebi.ac.uk/pdbsum/6qpd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6qpd ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/LACB_BOVIN LACB_BOVIN]] Primary component of whey, it binds retinol and is probably involved in the transport of that molecule.		[[http://www.uniprot.org/uniprot/LACB_BOVIN LACB_BOVIN]] Primary component of whey, it binds retinol and is probably involved in the transport of that molecule.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Recombinant proteins play an important role in medicine and have diverse applications in industrial biotechnology. Lactoglobulin has shown great potential for use in targeted drug delivery and body fluid detoxification because of its ability to bind a variety of molecules. In order to modify the biophysical properties of beta-lactoglobulin, a series of single-site mutations were designed using a structure-based approach. A 3-dimensional structure alignment of homologous molecules led to the design of nine beta-lactoglobulin variants with mutations introduced in the binding pocket region. Seven stable and correctly folded variants (L39Y, I56F, L58F, V92F, V92Y, F105L, M107L) were thoroughly characterized by fluorescence, circular dichroism, isothermal titration calorimetry, size-exclusion chromatography, and X-ray structural investigations. The effects of the amino acid substitutions were observed as slight rearrangements of the binding pocket geometry, but they also significantly influenced the global properties of the protein. Most of the mutations increased the thermal/chemical stability without altering the dimerization constant or pH-dependent conformational behavior. The crystal structures reveal that the I56F and F105L mutations reduced the depth of the binding pocket, which is advantageous since it can reduce the affinity to endogenous fatty acids. The F105L mutant created a unique binding mode for a fatty acid, supporting the idea that lactoglobulin can be altered to bind unique molecules. Selected variants possessing a unique combination of their individual properties can be used for further, more advanced mutagenesis, and the presented results support further research using beta-lactoglobulin as a therapeutic delivery agent or a blood detoxifying molecule.
		+
		+	Structure-based design approach to rational site-directed mutagenesis of beta-lactoglobulin.,Bonarek P, Loch JI, Tworzydlo M, Cooper DR, Milto K, Wrobel P, Kurpiewska K, Lewinski K J Struct Biol. 2020 Mar 10:107493. doi: 10.1016/j.jsb.2020.107493. PMID:32169624<ref>PMID:32169624</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6qpd" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Beta-lactoglobulin 3D structures\|Beta-lactoglobulin 3D structures]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bovin]]
		+	[[Category: Large Structures]]
	[[Category: Kaczor, K]]		[[Category: Kaczor, K]]
	[[Category: Leiwnski, K]]		[[Category: Leiwnski, K]]

OCA at 15:37, 27 February 2019

OCA — Wed, 27 Feb 2019 15:37:43 GMT

←Older revision		Revision as of 15:37, 27 February 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6qpd ~~is ON HOLD~~	+	==Engineered beta-lactoglobulin: variant I56F==
-		+	<StructureSection load='6qpd' size='340' side='right' caption='[[6qpd]], [[Resolution\|resolution]] 2.00Å' scene=''>
-	~~Authors~~: ~~Loch, J~~.I.~~, Kaczor, K~~.~~, Leiwnski, K~~.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6qpd]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QPD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6QPD FirstGlance]. <br>
-	~~Description~~: ~~Engineered beta~~-~~lactoglobulin~~: ~~variant I56F~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	<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=6qpd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qpd OCA], [http://pdbe.org/6qpd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6qpd RCSB], [http://www.ebi.ac.uk/pdbsum/6qpd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6qpd ProSAT]</span></td></tr>
-	[[~~Category~~: ~~Loch, J~~.I]]	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/LACB_BOVIN LACB_BOVIN]] Primary component of whey, it binds retinol and is probably involved in the transport of that molecule.
		+	__TOC__
		+	</StructureSection>
	[[Category: Kaczor, K]]		[[Category: Kaczor, K]]
	[[Category: Leiwnski, K]]		[[Category: Leiwnski, K]]
		+	[[Category: Loch, J I]]
		+	[[Category: Lipocalin]]
		+	[[Category: Mutation]]
		+	[[Category: Transport protein]]

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

OCA — Thu, 21 Feb 2019 05:26:56 GMT

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

←Older revision

Revision as of 05:26, 21 February 2019

OCA: New page: '''Unreleased structure''' The entry 6qpd is ON HOLD Authors: Loch, J.I., Kaczor, K., Leiwnski, K. Description: Engineered beta-lactoglobulin: variant I56F [[Category: Unreleased Struc...

OCA — Thu, 21 Feb 2019 05:26:55 GMT

New page: '''Unreleased structure''' The entry 6qpd is ON HOLD Authors: Loch, J.I., Kaczor, K., Leiwnski, K. Description: Engineered beta-lactoglobulin: variant I56F [[Category: Unreleased Struc...

New page

'''Unreleased structure'''

The entry 6qpd is ON HOLD

Authors: Loch, J.I., Kaczor, K., Leiwnski, K.

Description: Engineered beta-lactoglobulin: variant I56F
[[Category: Unreleased Structures]]
[[Category: Loch, J.I]]
[[Category: Kaczor, K]]
[[Category: Leiwnski, K]]