6t00 - Revision history

OCA at 12:51, 24 January 2024

OCA — Wed, 24 Jan 2024 12:51:29 GMT

←Older revision		Revision as of 12:51, 24 January 2024
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	<StructureSection load='6t00' size='340' side='right'caption='[[6t00]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='6t00' size='340' side='right'caption='[[6t00]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6t00]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6T00 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6T00 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6t00]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6T00 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6T00 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=NHE:2-~~[~~N-CYCLOHEXYLAMINO~~]~~ETHANE+SULFONIC+ACID'>NHE</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]] 2.1Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~PFF~~:~~4-FLUORO-L-PHENYLALANINE~~'>~~PFF~~</scene><~~/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=NHE:2-[N-CYCLOHEXYLAMINO]ETHANE+SULFONIC+ACID'>NHE</scene>, <scene name='pdbligand=PFF:4-FLUORO-L-PHENYLALANINE'>PFF</scene></td></tr>
-	<~~tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b~~></td>~~<td class="sblockDat">[[6szz\|6szz]]~~</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=6t00 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t00 OCA], [https://pdbe.org/6t00 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6t00 RCSB], [https://www.ebi.ac.uk/pdbsum/6t00 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6t00 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=6t00 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t00 OCA], [~~http~~://pdbe.org/6t00 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6t00 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6t00 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6t00 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/CSPB_BACSU CSPB_BACSU] Binds to the pentamer sequences ATTGG and CCAAT with highest affinity in single-stranded DNA, and also to other sequences. Has greater affinity for ATTGG than CCAAT. Can act as transcriptional activator of cold shock genes by recognizing putative ATTGG-box elements present in promoter regions of genes induced under cold shock conditions.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus subtilis]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Mayans, O]]	+	[[Category: Mayans O]]
-	[[Category: Zhou, T]]	+	[[Category: Zhou T]]
-	~~[[Category: Fluorine cold shock protein]]~~	+
-	~~[[Category: Structural protein~~]]	+

OCA at 09:24, 26 February 2020

OCA — Wed, 26 Feb 2020 09:24:13 GMT

←Older revision		Revision as of 09:24, 26 February 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6t00 is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of Cold Shock Protein B (CSP-B) containing 4-F-Phe modified residues==
		+	<StructureSection load='6t00' size='340' side='right'caption='[[6t00]], [[Resolution\|resolution]] 2.10Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6t00]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6T00 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6T00 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=NHE:2-[N-CYCLOHEXYLAMINO]ETHANE+SULFONIC+ACID'>NHE</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=PFF:4-FLUORO-L-PHENYLALANINE'>PFF</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6szz\|6szz]]</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=6t00 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t00 OCA], [http://pdbe.org/6t00 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6t00 RCSB], [http://www.ebi.ac.uk/pdbsum/6t00 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6t00 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Fluorine labelling represents one promising approach to study proteins in their native environment due to efficient suppressing of background signals. Here, we systematically probe inherent thermodynamic and structural characteristics of the Cold shock protein B from Bacillus subtilis (BsCspB) upon fluorine labelling. A sophisticated combination of fluorescence and NMR experiments has been applied to elucidate potential perturbations due to insertion of fluorine into the protein. We show that single fluorine labelling of phenylalanine or tryptophan residues has neither significant impact on thermodynamic stability nor on folding kinetics compared to wild type BsCspB. Structure determination of fluorinated phenylalanine and tryptophan labelled BsCspB using X-ray crystallography reveals no displacements even for the orientation of fluorinated aromatic side chains in comparison to wild type BsCspB. Hence we propose that single fluorinated phenylalanine and tryptophan residues used for protein labelling may serve as ideal probes to reliably characterize inherent features of proteins that are present in a highly biological context like the cell.

-	~~Authors: Zhou~~, T., ~~Mayans~~, O.	+	What does fluorine do to a protein? Thermodynamic, and highly-resolved structural insights into fluorine-labelled variants of the cold shock protein.,Welte H, Zhou T, Mihajlenko X, Mayans O, Kovermann M Sci Rep. 2020 Feb 14;10(1):2640. doi: 10.1038/s41598-020-59446-w. PMID:32060391<ref>PMID:32060391</ref>

-	~~Description: Crystal structure~~ of ~~Cold Shock Protein B (CSP~~-~~B) containing 4~~-~~F-Phe modified residues~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 6t00" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Mayans, O]]		[[Category: Mayans, O]]
	[[Category: Zhou, T]]		[[Category: Zhou, T]]
		+	[[Category: Fluorine cold shock protein]]
		+	[[Category: Structural protein]]

OCA at 07:24, 30 October 2019

OCA — Wed, 30 Oct 2019 07:24:31 GMT

←Older revision		Revision as of 07:24, 30 October 2019
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6t00 is ON HOLD	+	The entry 6t00 is ON HOLD until Paper Publication

	Authors: Zhou, T., Mayans, O.		Authors: Zhou, T., Mayans, O.

OCA: Protected "6t00" [edit=sysop:move=sysop]

OCA — Thu, 10 Oct 2019 03:47:13 GMT

Protected "6t00" [edit=sysop:move=sysop]

←Older revision

Revision as of 03:47, 10 October 2019

OCA: New page: '''Unreleased structure''' The entry 6t00 is ON HOLD Authors: Zhou, T., Mayans, O. Description: Crystal structure of Cold Shock Protein B (CSP-B) containing 4-F-Phe modified residues [...

OCA — Thu, 10 Oct 2019 03:47:12 GMT

New page: '''Unreleased structure''' The entry 6t00 is ON HOLD Authors: Zhou, T., Mayans, O. Description: Crystal structure of Cold Shock Protein B (CSP-B) containing 4-F-Phe modified residues [...

New page

'''Unreleased structure'''

The entry 6t00 is ON HOLD

Authors: Zhou, T., Mayans, O.

Description: Crystal structure of Cold Shock Protein B (CSP-B) containing 4-F-Phe modified residues
[[Category: Unreleased Structures]]
[[Category: Mayans, O]]
[[Category: Zhou, T]]