4kk4 - Revision history

OCA at 08:55, 7 December 2022

2022-12-07T08:55:49Z

←Older revision		Revision as of 08:55, 7 December 2022
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	==YwlE arginine phosphatase - C7S mutant with phosphorylated active site serine==		==YwlE arginine phosphatase - C7S mutant with phosphorylated active site serine==
-	<StructureSection load='4kk4' size='340' side='right' caption='[[4kk4]], [[Resolution\|resolution]] 1.80Å' scene=''>	+	<StructureSection load='4kk4' size='340' side='right'caption='[[4kk4]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4kk4]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Bacsu Bacsu~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KK4 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4KK4 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4kk4]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis_subsp._subtilis_str._168 Bacillus subtilis subsp. subtilis str. 168]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KK4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4KK4 FirstGlance]. <br>
-	</td></tr><tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene~~></td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kk3\|4kk3]]</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=4kk4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kk4 OCA], [https://pdbe.org/4kk4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4kk4 RCSB], [https://www.ebi.ac.uk/pdbsum/4kk4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4kk4 ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ywlE, BSU36930, ipc-31d ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=224308 BACSU])</td></tr>	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protein-tyrosine-phosphatase Protein-tyrosine-phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.48 3.1.3.48] </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=4kk4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kk4 OCA], [~~http~~://pdbe.org/4kk4 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4kk4 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4kk4 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4kk4 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~YWLE_BACSU YWLE_BACSU~~]~~] Dephosphorylates~~ the ~~phosphotyrosine-containing~~ proteins. ~~Involved~~ in ~~ethanol~~ stress resistance.	+	[https://www.uniprot.org/uniprot/PAP_BACSU PAP_BACSU] Catalyzes the specific dephosphorylation of phosphoarginine residues in a large number of proteins. Counteracts the protein arginine kinase McsB in vivo. Can dephosphorylate CtsR-P; thus, can restore the DNA-binding ability of the CtsR repressor by reversing the McsB-mediated phosphorylation. Is the only active pArg phosphatase present in B.subtilis. Exhibits almost no activity against pSer, pThr, or pTyr peptides. Appears to play a role in B.subtilis stress resistance. Protein arginine phosphorylation has a physiologically important role and is involved in the regulation of many critical cellular processes, such as protein homeostasis, motility, competence, and stringent and stress responses, by regulating gene expression and protein activity.<ref>PMID:22517742</ref> <ref>PMID:23770242</ref> <ref>PMID:24263382</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 20:

	==See Also==		==See Also==
-	*[[Tyrosine phosphatase\|Tyrosine phosphatase]]	+	*[[Tyrosine phosphatase 3D structures\|Tyrosine phosphatase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacsu~~]]	+	[[Category: Bacillus subtilis subsp. subtilis str. 168]]
-	[[Category: ~~Protein-tyrosine-phosphatase~~]]	+	[[Category: Large Structures]]
-	[[Category: Clausen, T]]	+	[[Category: Clausen T]]
-	[[Category: Fuhrmann, J]]	+	[[Category: Fuhrmann J]]
-	~~[[Category: Arginine dephosphorylation]]~~	+
-	~~[[Category: Arginine phosphorylation]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Lmw ptp]]~~	+
-	~~[[Category: Phosphatase reaction intermediate]]~~	+
-	~~[[Category: Phosphorylation at ser6]]~~	+
-	~~[[Category: Protein modification~~]]	+

OCA at 17:15, 4 August 2016

2016-08-04T17:15:57Z

←Older revision		Revision as of 17:15, 4 August 2016
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		+
	==YwlE arginine phosphatase - C7S mutant with phosphorylated active site serine==		==YwlE arginine phosphatase - C7S mutant with phosphorylated active site serine==
	<StructureSection load='4kk4' size='340' side='right' caption='[[4kk4]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='4kk4' size='340' side='right' caption='[[4kk4]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4kk4]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Bacillus_subtilis_subsp._subtilis_str._168 Bacillus subtilis subsp. subtilis str. 168~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KK4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4KK4 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4kk4]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacsu Bacsu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KK4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4KK4 FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kk3\|4kk3]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kk3\|4kk3]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ywlE, BSU36930, ipc-31d ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=224308 ~~Bacillus subtilis subsp. subtilis str. 168~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ywlE, BSU36930, ipc-31d ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=224308 BACSU])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protein-tyrosine-phosphatase Protein-tyrosine-phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.48 3.1.3.48] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protein-tyrosine-phosphatase Protein-tyrosine-phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.48 3.1.3.48] </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=4kk4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kk4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4kk4 RCSB], [http://www.ebi.ac.uk/pdbsum/4kk4 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=4kk4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kk4 OCA], [http://pdbe.org/4kk4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4kk4 RCSB], [http://www.ebi.ac.uk/pdbsum/4kk4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4kk4 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 20:
	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 4kk4" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 26:		Line 28:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus subtilis subsp. subtilis str. 168~~]]	+	[[Category: Bacsu]]
	[[Category: Protein-tyrosine-phosphatase]]		[[Category: Protein-tyrosine-phosphatase]]
	[[Category: Clausen, T]]		[[Category: Clausen, T]]

OCA at 11:19, 25 December 2014

2014-12-25T11:19:25Z

←Older revision		Revision as of 11:19, 25 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_4kk4\| PDB=4kk4 \| SCENE= }}~~	+	==YwlE arginine phosphatase - C7S mutant with phosphorylated active site serine==
-	===YwlE arginine phosphatase - C7S mutant with phosphorylated active site serine===	+	<StructureSection load='4kk4' size='340' side='right' caption='[[4kk4]], [[Resolution\|resolution]] 1.80Å' scene=''>
-	~~{{ABSTRACT_PUBMED_23770242}}~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4kk4]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis_subsp._subtilis_str._168 Bacillus subtilis subsp. subtilis str. 168]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KK4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4KK4 FirstGlance]. <br>
-	==Function==	+	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kk3\|4kk3]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ywlE, BSU36930, ipc-31d ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=224308 Bacillus subtilis subsp. subtilis str. 168])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protein-tyrosine-phosphatase Protein-tyrosine-phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.48 3.1.3.48] </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=4kk4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kk4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4kk4 RCSB], [http://www.ebi.ac.uk/pdbsum/4kk4 PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
	[[http://www.uniprot.org/uniprot/YWLE_BACSU YWLE_BACSU]] Dephosphorylates the phosphotyrosine-containing proteins. Involved in ethanol stress resistance.		[[http://www.uniprot.org/uniprot/YWLE_BACSU YWLE_BACSU]] Dephosphorylates the phosphotyrosine-containing proteins. Involved in ethanol stress resistance.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Many cellular pathways are regulated by the competing activity of protein kinases and phosphatases. The recent identification of arginine phosphorylation as a protein modification in bacteria prompted us to analyze the molecular basis of targeting phospho-arginine. In this work, we characterize an annotated tyrosine phosphatase, YwlE, that counteracts the protein arginine kinase McsB. Strikingly, structural studies of YwlE reaction intermediates provide a direct view on a captured arginine residue. Together with biochemical data, the crystal structures depict the evolution of a highly specific phospho-arginine phosphatase, with the use of a size-and-polarity filter for distinguishing phosphorylated arginine from other phosphorylated side chains. To confirm the proposed mechanism, we performed bioinformatic searches for phosphatases, employing a similar selectivity filter, and identified a protein in Drosophila melanogaster exhibiting robust arginine phosphatase activity. In sum, our findings uncover the molecular framework for specific targeting of phospho-arginine and suggest that protein arginine (de)phosphorylation may be relevant in eukaryotes.
		+
		+	Structural basis for recognizing phosphoarginine and evolving residue-specific protein phosphatases in gram-positive bacteria.,Fuhrmann J, Mierzwa B, Trentini DB, Spiess S, Lehner A, Charpentier E, Clausen T Cell Rep. 2013 Jun 27;3(6):1832-9. doi: 10.1016/j.celrep.2013.05.023. Epub 2013, Jun 13. PMID:23770242<ref>PMID:23770242</ref>

-	~~==About this Structure==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[4kk4]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Bacillus_subtilis_subsp~~.~~_subtilis_str._168 Bacillus subtilis subsp. subtilis str. 168]. Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=4KK4 OCA].~~	+	</div>

-	==~~Reference~~==	+	==See Also==
-	~~<ref group~~=~~"xtra">PMID:023770242</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	*[[Tyrosine phosphatase\|Tyrosine phosphatase]]
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Bacillus subtilis subsp. subtilis str. 168]]		[[Category: Bacillus subtilis subsp. subtilis str. 168]]
	[[Category: Protein-tyrosine-phosphatase]]		[[Category: Protein-tyrosine-phosphatase]]
-	[[Category: Clausen, T.]]	+	[[Category: Clausen, T]]
-	[[Category: Fuhrmann, J.]]	+	[[Category: Fuhrmann, J]]
	[[Category: Arginine dephosphorylation]]		[[Category: Arginine dephosphorylation]]
	[[Category: Arginine phosphorylation]]		[[Category: Arginine phosphorylation]]

OCA at 14:04, 3 July 2013

2013-07-03T14:04:32Z

←Older revision		Revision as of 14:04, 3 July 2013
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{STRUCTURE_4kk4\| PDB=4kk4 \| SCENE= }}
		+	===YwlE arginine phosphatase - C7S mutant with phosphorylated active site serine===
		+	{{ABSTRACT_PUBMED_23770242}}

-	~~The entry 4kk4 is ON HOLD until Paper Publication~~	+	==Function==
		+	[[http://www.uniprot.org/uniprot/YWLE_BACSU YWLE_BACSU]] Dephosphorylates the phosphotyrosine-containing proteins. Involved in ethanol stress resistance.

-	~~Authors~~: ~~Fuhrmann, J~~.~~, Clausen, T~~.	+	==About this Structure==
		+	[[4kk4]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis_subsp._subtilis_str._168 Bacillus subtilis subsp. subtilis str. 168]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KK4 OCA].

-	~~Description~~: ~~YwlE arginine phosphatase~~ -~~C7S mutant with phosphorylated active site serine~~	+	==Reference==
		+	<ref group="xtra">PMID:023770242</ref><references group="xtra"/><references/>
		+	[[Category: Bacillus subtilis subsp. subtilis str. 168]]
		+	[[Category: Protein-tyrosine-phosphatase]]
		+	[[Category: Clausen, T.]]
		+	[[Category: Fuhrmann, J.]]
		+	[[Category: Arginine dephosphorylation]]
		+	[[Category: Arginine phosphorylation]]
		+	[[Category: Hydrolase]]
		+	[[Category: Lmw ptp]]
		+	[[Category: Phosphatase reaction intermediate]]
		+	[[Category: Phosphorylation at ser6]]
		+	[[Category: Protein modification]]

OCA at 11:41, 19 June 2013

2013-06-19T11:41:41Z

←Older revision		Revision as of 11:41, 19 June 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4kk4 is ON HOLD	+	The entry 4kk4 is ON HOLD until Paper Publication

	Authors: Fuhrmann, J., Clausen, T.		Authors: Fuhrmann, J., Clausen, T.

	Description: YwlE arginine phosphatase -C7S mutant with phosphorylated active site serine		Description: YwlE arginine phosphatase -C7S mutant with phosphorylated active site serine

OCA: Protected "4kk4" [edit=sysop:move=sysop]

2013-05-16T06:57:30Z

Protected "4kk4" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:57, 16 May 2013

OCA: New page: '''Unreleased structure''' The entry 4kk4 is ON HOLD Authors: Fuhrmann, J., Clausen, T. Description: YwlE arginine phosphatase -C7S mutant with phosphorylated active site serine

2013-05-16T06:57:29Z

New page: '''Unreleased structure''' The entry 4kk4 is ON HOLD Authors: Fuhrmann, J., Clausen, T. Description: YwlE arginine phosphatase -C7S mutant with phosphorylated active site serine

New page

'''Unreleased structure'''

The entry 4kk4 is ON HOLD

Authors: Fuhrmann, J., Clausen, T.

Description: YwlE arginine phosphatase -C7S mutant with phosphorylated active site serine