5t17 - Revision history

OCA at 15:34, 6 March 2024

OCA — Wed, 06 Mar 2024 15:34:54 GMT

←Older revision		Revision as of 15:34, 6 March 2024
Line 1:		Line 1:

	==NMR structure of the E. coli protein NPr, residues 1-85==		==NMR structure of the E. coli protein NPr, residues 1-85==
-	<StructureSection load='5t17' size='340' side='right'caption='[[5t17~~]], [[NMR_Ensembles_of_Models \| 30 NMR models~~]]' scene=''>	+	<StructureSection load='5t17' size='340' side='right'caption='[[5t17]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5t17]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Eco57 Eco57~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5T17 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5T17 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5t17]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_O157:H7 Escherichia coli O157:H7]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5T17 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5T17 FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>ptsO, Z4569, ECs4085 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~83334 ECO57])~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</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=5t17 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5t17 OCA], [~~http~~://pdbe.org/5t17 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5t17 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5t17 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5t17 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=5t17 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5t17 OCA], [https://pdbe.org/5t17 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5t17 RCSB], [https://www.ebi.ac.uk/pdbsum/5t17 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5t17 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~PTSO_ECO57 PTSO_ECO57]~~] Component of the phosphoenolpyruvate-dependent nitrogen-metabolic phosphotransferase system (nitrogen-metabolic PTS), that seems to be involved in regulating nitrogen metabolism. The phosphoryl group from phosphoenolpyruvate (PEP) is transferred to the phosphoryl carrier protein NPr by enzyme I-Ntr. Phospho-NPr then transfers it to EIIA-Ntr. Could function in the transcriptional regulation of sigma-54 dependent operons in conjunction with the NPr (PtsO) and EIIA-Ntr (PtsN) proteins ~~(By similarity)~~.	+	[https://www.uniprot.org/uniprot/PTSO_ECOLI PTSO_ECOLI] Component of the phosphoenolpyruvate-dependent nitrogen-metabolic phosphotransferase system (nitrogen-metabolic PTS), that seems to be involved in regulating nitrogen metabolism. The phosphoryl group from phosphoenolpyruvate (PEP) is transferred to the phosphoryl carrier protein NPr by enzyme I-Ntr. Phospho-NPr then transfers it to EIIA-Ntr. Could function in the transcriptional regulation of sigma-54 dependent operons in conjunction with the NPr (PtsO) and EIIA-Ntr (PtsN) proteins.
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	A nitrogen-related signal transduction pathway, consisting of the three phosphotransfer proteins EI(Ntr), NPr, and IIA(Ntr), was discovered recently to regulate the uptake of K(+) in Escherichia coli. In particular, dephosphorylated IIA(Ntr) inhibits the activity of the K(+) transporter TrkA. Since the phosphorylation state of IIA(Ntr) is partially determined by its reversible phosphorylation by NPr, we have determined the three-dimensional structure of NPr by solution NMR spectroscopy. In total, we obtained 973 NOE-derived distance restraints, 112 chemical shift-derived backbone angle restraints, and 35 hydrogen-bond restraints derived from temperature coefficients (wave). We propose that temperature wave is useful for identifying exposed beta-strands and assists in establishing protein folds based on chemical shifts. The deduced structure of NPr contains three alpha-helices and four beta-strands with the three helices all packed on the same face of the beta-sheet. The active site residue His16 of NPr for phosphoryl transfer was found to be neutral and in the N epsilon 2-H tautomeric state. There appears to be increased motion in the active site region of NPr compared to HPr, a homologous protein involved in the uptake and regulation of carbohydrate utilization.	+
-		+
-	Solution structure of NPr, a bacterial signal-transducing protein that controls the phosphorylation state of the potassium transporter-regulating protein IIA Ntr.,Li X, Peterkofsky A, Wang G Amino Acids. 2008 Oct;35(3):531-9. doi: 10.1007/s00726-008-0079-9. Epub 2008 Apr , 18. PMID:18421563<ref>PMID:18421563</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 5t17" style="background-color:#fffaf0;"></div>~~	+

	==See Also==		==See Also==
	*[[Phosphocarrier protein HPr 3D structures\|Phosphocarrier protein HPr 3D structures]]		*[[Phosphocarrier protein HPr 3D structures\|Phosphocarrier protein HPr 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Eco57~~]]	+	[[Category: Escherichia coli O157:H7]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Li, X]]	+	[[Category: Li X]]
-	[[Category: Peterkofsky, A]]	+	[[Category: Peterkofsky A]]
-	[[Category: Wang, G]]	+	[[Category: Wang G]]
-	~~[[Category: Biofilm]]~~	+
-	~~[[Category: Hpr-like]]~~	+
-	~~[[Category: Phosphotransfer protein]]~~	+
-	~~[[Category: Ptsntr]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 09:21, 4 December 2019

OCA — Wed, 04 Dec 2019 09:21:38 GMT

←Older revision		Revision as of 09:21, 4 December 2019
Line 1:		Line 1:

	==NMR structure of the E. coli protein NPr, residues 1-85==		==NMR structure of the E. coli protein NPr, residues 1-85==
-	<StructureSection load='5t17' size='340' side='right' caption='[[5t17]], [[NMR_Ensembles_of_Models \| 30 NMR models]]' scene=''>	+	<StructureSection load='5t17' size='340' side='right'caption='[[5t17]], [[NMR_Ensembles_of_Models \| 30 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5t17]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Eco57 Eco57]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5T17 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5T17 FirstGlance]. <br>		<table><tr><td colspan='2'>[[5t17]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Eco57 Eco57]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5T17 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5T17 FirstGlance]. <br>
Line 18:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 5t17" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5t17" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Phosphocarrier protein HPr 3D structures\|Phosphocarrier protein HPr 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 23:		Line 26:
	</StructureSection>		</StructureSection>
	[[Category: Eco57]]		[[Category: Eco57]]
		+	[[Category: Large Structures]]
	[[Category: Li, X]]		[[Category: Li, X]]
	[[Category: Peterkofsky, A]]		[[Category: Peterkofsky, A]]

OCA at 14:19, 6 November 2017

OCA — Mon, 06 Nov 2017 14:19:57 GMT

←Older revision		Revision as of 14:19, 6 November 2017
Line 3:		Line 3:
	<StructureSection load='5t17' size='340' side='right' caption='[[5t17]], [[NMR_Ensembles_of_Models \| 30 NMR models]]' scene=''>		<StructureSection load='5t17' size='340' side='right' caption='[[5t17]], [[NMR_Ensembles_of_Models \| 30 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5t17]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5T17 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5T17 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5t17]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Eco57 Eco57]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5T17 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5T17 FirstGlance]. <br>
-	</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=5t17 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5t17 OCA], [http://pdbe.org/5t17 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5t17 RCSB], [http://www.ebi.ac.uk/pdbsum/5t17 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5t17 ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ptsO, Z4569, ECs4085 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83334 ECO57])</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=5t17 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5t17 OCA], [http://pdbe.org/5t17 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5t17 RCSB], [http://www.ebi.ac.uk/pdbsum/5t17 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5t17 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 21:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Eco57]]
	[[Category: Li, X]]		[[Category: Li, X]]
	[[Category: Peterkofsky, A]]		[[Category: Peterkofsky, A]]

OCA at 16:46, 3 October 2016

OCA — Mon, 03 Oct 2016 16:46:34 GMT

←Older revision		Revision as of 16:46, 3 October 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5t17 is ~~ON HOLD~~	+	==NMR structure of the E. coli protein NPr, residues 1-85==
		+	<StructureSection load='5t17' size='340' side='right' caption='[[5t17]], [[NMR_Ensembles_of_Models \| 30 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5t17]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5T17 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5T17 FirstGlance]. <br>
		+	</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=5t17 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5t17 OCA], [http://pdbe.org/5t17 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5t17 RCSB], [http://www.ebi.ac.uk/pdbsum/5t17 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5t17 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PTSO_ECO57 PTSO_ECO57]] Component of the phosphoenolpyruvate-dependent nitrogen-metabolic phosphotransferase system (nitrogen-metabolic PTS), that seems to be involved in regulating nitrogen metabolism. The phosphoryl group from phosphoenolpyruvate (PEP) is transferred to the phosphoryl carrier protein NPr by enzyme I-Ntr. Phospho-NPr then transfers it to EIIA-Ntr. Could function in the transcriptional regulation of sigma-54 dependent operons in conjunction with the NPr (PtsO) and EIIA-Ntr (PtsN) proteins (By similarity).
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	A nitrogen-related signal transduction pathway, consisting of the three phosphotransfer proteins EI(Ntr), NPr, and IIA(Ntr), was discovered recently to regulate the uptake of K(+) in Escherichia coli. In particular, dephosphorylated IIA(Ntr) inhibits the activity of the K(+) transporter TrkA. Since the phosphorylation state of IIA(Ntr) is partially determined by its reversible phosphorylation by NPr, we have determined the three-dimensional structure of NPr by solution NMR spectroscopy. In total, we obtained 973 NOE-derived distance restraints, 112 chemical shift-derived backbone angle restraints, and 35 hydrogen-bond restraints derived from temperature coefficients (wave). We propose that temperature wave is useful for identifying exposed beta-strands and assists in establishing protein folds based on chemical shifts. The deduced structure of NPr contains three alpha-helices and four beta-strands with the three helices all packed on the same face of the beta-sheet. The active site residue His16 of NPr for phosphoryl transfer was found to be neutral and in the N epsilon 2-H tautomeric state. There appears to be increased motion in the active site region of NPr compared to HPr, a homologous protein involved in the uptake and regulation of carbohydrate utilization.

-	~~Authors: Wang~~, G., Li, X., Peterkofsky, A.	+	Solution structure of NPr, a bacterial signal-transducing protein that controls the phosphorylation state of the potassium transporter-regulating protein IIA Ntr.,Li X, Peterkofsky A, Wang G Amino Acids. 2008 Oct;35(3):531-9. doi: 10.1007/s00726-008-0079-9. Epub 2008 Apr , 18. PMID:18421563<ref>PMID:18421563</ref>

-	~~Description: NMR structure~~ of the E. ~~coli protein NPr, residues 1~~-85	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5t17" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Li, X]]
	[[Category: Peterkofsky, A]]		[[Category: Peterkofsky, A]]
	[[Category: Wang, G]]		[[Category: Wang, G]]
-	[[Category: ~~Li, X~~]]	+	[[Category: Biofilm]]
		+	[[Category: Hpr-like]]
		+	[[Category: Phosphotransfer protein]]
		+	[[Category: Ptsntr]]
		+	[[Category: Transferase]]

OCA: Protected "5t17" [edit=sysop:move=sysop]

OCA — Fri, 09 Sep 2016 15:31:23 GMT

Protected "5t17" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:31, 9 September 2016

OCA: New page: '''Unreleased structure''' The entry 5t17 is ON HOLD Authors: Wang, G., Li, X., Peterkofsky, A. Description: NMR structure of the E. coli protein NPr, residues 1-85 [[Category: Unrelea...

OCA — Fri, 09 Sep 2016 15:31:22 GMT

New page: '''Unreleased structure''' The entry 5t17 is ON HOLD Authors: Wang, G., Li, X., Peterkofsky, A. Description: NMR structure of the E. coli protein NPr, residues 1-85 [[Category: Unrelea...

New page

'''Unreleased structure'''

The entry 5t17 is ON HOLD

Authors: Wang, G., Li, X., Peterkofsky, A.

Description: NMR structure of the E. coli protein NPr, residues 1-85
[[Category: Unreleased Structures]]
[[Category: Peterkofsky, A]]
[[Category: Wang, G]]
[[Category: Li, X]]