1f5s - Revision history

OCA at 13:23, 13 March 2024

2024-03-13T13:23:14Z

←Older revision		Revision as of 13:23, 13 March 2024
Line 3:		Line 3:
	<StructureSection load='1f5s' size='340' side='right'caption='[[1f5s]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1f5s' size='340' side='right'caption='[[1f5s]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1f5s]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_43067 Atcc 43067~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F5S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1F5S FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1f5s]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F5S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1F5S FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>~~, ~~<scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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]] 1.8Å</td></tr>
-	<tr id='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"><~~span class~~='~~plainlinks~~'>~~[https:~~/~~/en.wikipedia.org/wiki/Phosphoserine_phosphatase Phosphoserine phosphatase]~~, ~~with EC number [https~~:~~//www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.3 3.1.3.3]~~ </~~span~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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=1f5s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f5s OCA], [https://pdbe.org/1f5s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1f5s RCSB], [https://www.ebi.ac.uk/pdbsum/1f5s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1f5s ProSAT], [https://www.topsan.org/Proteins/BSGC/1f5s TOPSAN]</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=1f5s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f5s OCA], [https://pdbe.org/1f5s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1f5s RCSB], [https://www.ebi.ac.uk/pdbsum/1f5s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1f5s ProSAT], [https://www.topsan.org/Proteins/BSGC/1f5s TOPSAN]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/SERB_METJA SERB_METJA]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 18:		Line 20:
	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1f5s ConSurf].		</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1f5s ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	BACKGROUND: D-Serine is a co-agonist of the N-methyl-D-aspartate subtype of glutamate receptors, a major neurotransmitter receptor family in mammalian nervous systems. D-Serine is converted from L-serine, 90% of which is the product of the enzyme phosphoserine phosphatase (PSP). PSP from M. jannaschii (MJ) shares significant sequence homology with human PSP. PSPs and P-type ATPases are members of the haloacid dehalogenase (HAD)-like hydrolase family, and all members share three conserved sequence motifs. PSP and P-type ATPases utilize a common mechanism that involves Mg(2+)-dependent phosphorylation and autodephosphorylation at an aspartyl side chain in the active site. The strong resemblance in sequence and mechanism implies structural similarity among these enzymes. RESULTS: The PSP crystal structure resembles the NAD(P) binding Rossmann fold with a large insertion of a four-helix-bundle domain and a beta hairpin. Three known conserved sequence motifs are arranged next to each other in space and outline the active site. A phosphate and a magnesium ion are bound to the active site. The active site is within a closed environment between the core alpha/beta domain and the four-helix-bundle domain. CONCLUSIONS: The crystal structure of MJ PSP was determined at 1.8 A resolution. Critical residues were assigned based on the active site structure and ligand binding geometry. The PSP structure is in a closed conformation that may resemble the phosphoserine bound state or the state after autodephosphorylation. Compared to a P-type ATPase (Ca(2+)-ATPase) structure, which is in an open state, this PSP structure appears also to be a good model for the closed conformation of P-type ATPase.
-
-	Crystal structure of phosphoserine phosphatase from Methanococcus jannaschii, a hyperthermophile, at 1.8 A resolution.,Wang W, Kim R, Jancarik J, Yokota H, Kim SH Structure. 2001 Jan 10;9(1):65-71. PMID:11342136<ref>PMID:11342136</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1f5s" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Phosphoserine phosphatase\|Phosphoserine phosphatase]]		*[[Phosphoserine phosphatase\|Phosphoserine phosphatase]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Atcc 43067]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Phosphoserine phosphatase]]~~	+	[[Category: Methanocaldococcus jannaschii]]
-	~~[[Category: Structural genomic~~]]	+	[[Category: Jancarik J]]
-	[[Category: Jancarik, J]]	+	[[Category: Kim R]]
-	[[Category: Kim, R]]	+	[[Category: Kim SH]]
-	[[Category: Kim~~, S H~~]]	+	[[Category: Wang W]]
-	[[Category: Wang, W]]	+	[[Category: Yokota H]]
-	[[Category: Yokota, H]]	+
-	~~[[Category: Beta-hair pin]]~~	+
-	~~[[Category: Bsgc structure funded by nih]]~~	+
-	~~[[Category: Four helix bundle]]~~	+
-	~~[[Category: Had family hydrolase]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: PSI, Protein structure initiative~~]]	+

OCA at 09:46, 21 July 2021

2021-07-21T09:46:41Z

←Older revision		Revision as of 09:46, 21 July 2021
Line 3:		Line 3:
	<StructureSection load='1f5s' size='340' side='right'caption='[[1f5s]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1f5s' size='340' side='right'caption='[[1f5s]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1f5s]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_43067 Atcc 43067]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F5S OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1F5S FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1f5s]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_43067 Atcc 43067]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F5S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1F5S FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Phosphoserine_phosphatase Phosphoserine phosphatase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.3 3.1.3.3] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Phosphoserine_phosphatase Phosphoserine phosphatase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.3 3.1.3.3] </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=1f5s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f5s OCA], [~~http~~://pdbe.org/1f5s PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1f5s RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1f5s PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1f5s ProSAT], [~~http~~://www.topsan.org/Proteins/BSGC/1f5s TOPSAN]</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=1f5s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f5s OCA], [https://pdbe.org/1f5s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1f5s RCSB], [https://www.ebi.ac.uk/pdbsum/1f5s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1f5s ProSAT], [https://www.topsan.org/Proteins/BSGC/1f5s TOPSAN]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 11:04, 16 October 2019

2019-10-16T11:04:43Z

←Older revision		Revision as of 11:04, 16 October 2019
Line 1:		Line 1:

	==CRYSTAL STRUCTURE OF PHOSPHOSERINE PHOSPHATASE FROM METHANOCOCCUS JANNASCHII==		==CRYSTAL STRUCTURE OF PHOSPHOSERINE PHOSPHATASE FROM METHANOCOCCUS JANNASCHII==
-	<StructureSection load='1f5s' size='340' side='right' caption='[[1f5s]], [[Resolution\|resolution]] 1.80Å' scene=''>	+	<StructureSection load='1f5s' size='340' side='right'caption='[[1f5s]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1f5s]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43067 Atcc 43067]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F5S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1F5S FirstGlance]. <br>		<table><tr><td colspan='2'>[[1f5s]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43067 Atcc 43067]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F5S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1F5S FirstGlance]. <br>
Line 27:		Line 27:
	</div>		</div>
	<div class="pdbe-citations 1f5s" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1f5s" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Phosphoserine phosphatase\|Phosphoserine phosphatase]]
	== References ==		== References ==
	<references/>		<references/>
Line 32:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Atcc 43067]]		[[Category: Atcc 43067]]
		+	[[Category: Large Structures]]
	[[Category: Phosphoserine phosphatase]]		[[Category: Phosphoserine phosphatase]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]

OCA at 09:32, 27 December 2017

2017-12-27T09:32:14Z

←Older revision		Revision as of 09:32, 27 December 2017
Line 1:		Line 1:
		+
	==CRYSTAL STRUCTURE OF PHOSPHOSERINE PHOSPHATASE FROM METHANOCOCCUS JANNASCHII==		==CRYSTAL STRUCTURE OF PHOSPHOSERINE PHOSPHATASE FROM METHANOCOCCUS JANNASCHII==
	<StructureSection load='1f5s' size='340' side='right' caption='[[1f5s]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1f5s' size='340' side='right' caption='[[1f5s]], [[Resolution\|resolution]] 1.80Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phosphoserine_phosphatase Phosphoserine phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.3 3.1.3.3] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phosphoserine_phosphatase Phosphoserine phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.3 3.1.3.3] </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=1f5s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f5s OCA], [http://pdbe.org/1f5s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1f5s RCSB], [http://www.ebi.ac.uk/pdbsum/1f5s PDBsum], [http://www.topsan.org/Proteins/BSGC/1f5s TOPSAN]</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=1f5s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f5s OCA], [http://pdbe.org/1f5s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1f5s RCSB], [http://www.ebi.ac.uk/pdbsum/1f5s PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1f5s ProSAT], [http://www.topsan.org/Proteins/BSGC/1f5s TOPSAN]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 11:		Line 12:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/f5/1f5s_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/f5/1f5s_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
Line 26:		Line 27:
	</div>		</div>
	<div class="pdbe-citations 1f5s" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1f5s" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Phosphoserine phosphatase\|Phosphoserine phosphatase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 18:34, 7 February 2016

2016-02-07T18:34:13Z

←Older revision		Revision as of 18:34, 7 February 2016
Line 15:		Line 15:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1f5s ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 04:05, 10 September 2015

2015-09-10T04:05:34Z

←Older revision		Revision as of 04:05, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1f5s' size='340' side='right' caption='[[1f5s]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1f5s' size='340' side='right' caption='[[1f5s]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1f5s]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Methanocaldococcus_jannaschii Methanocaldococcus jannaschii~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F5S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1F5S FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1f5s]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43067 Atcc 43067]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F5S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1F5S FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phosphoserine_phosphatase Phosphoserine phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.3 3.1.3.3] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phosphoserine_phosphatase Phosphoserine phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.3 3.1.3.3] </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=1f5s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f5s OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1f5s RCSB], [http://www.ebi.ac.uk/pdbsum/1f5s PDBsum], [http://www.topsan.org/Proteins/BSGC/1f5s TOPSAN]</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=1f5s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f5s OCA], [http://pdbe.org/1f5s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1f5s RCSB], [http://www.ebi.ac.uk/pdbsum/1f5s PDBsum], [http://www.topsan.org/Proteins/BSGC/1f5s TOPSAN]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 25:		Line 25:
	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 1f5s" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 32:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Methanocaldococcus jannaschii~~]]	+	[[Category: Atcc 43067]]
	[[Category: Phosphoserine phosphatase]]		[[Category: Phosphoserine phosphatase]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]

OCA at 18:33, 22 December 2014

2014-12-22T18:33:36Z

←Older revision		Revision as of 18:33, 22 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1f5s]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F5S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1F5S FirstGlance]. <br>		<table><tr><td colspan='2'>[[1f5s]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F5S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1F5S FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phosphoserine_phosphatase Phosphoserine phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.3 3.1.3.3] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phosphoserine_phosphatase Phosphoserine phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.3 3.1.3.3] </span></td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1f5s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f5s OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1f5s RCSB], [http://www.ebi.ac.uk/pdbsum/1f5s PDBsum], [http://www.topsan.org/Proteins/BSGC/1f5s TOPSAN]</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=1f5s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f5s OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1f5s RCSB], [http://www.ebi.ac.uk/pdbsum/1f5s PDBsum], [http://www.topsan.org/Proteins/BSGC/1f5s TOPSAN]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 34:
	[[Category: Methanocaldococcus jannaschii]]		[[Category: Methanocaldococcus jannaschii]]
	[[Category: Phosphoserine phosphatase]]		[[Category: Phosphoserine phosphatase]]
-	[[Category: ~~BSGC, Berkeley~~ Structural ~~Genomics Center.~~]]	+	[[Category: Structural genomic]]
-	[[Category: Jancarik, J.]]	+	[[Category: Jancarik, J]]
-	[[Category: Kim, R.]]	+	[[Category: Kim, R]]
-	[[Category: Kim, S H.]]	+	[[Category: Kim, S H]]
-	[[Category: Wang, W.]]	+	[[Category: Wang, W]]
-	[[Category: Yokota, H~~.]]~~	+	[[Category: Yokota, H]]
-	~~[[Category: Berkeley structural genomics center~~]]	+
	[[Category: Beta-hair pin]]		[[Category: Beta-hair pin]]
	[[Category: Bsgc structure funded by nih]]		[[Category: Bsgc structure funded by nih]]
Line 46:		Line 45:
	[[Category: Had family hydrolase]]		[[Category: Had family hydrolase]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
-	[[Category: Protein structure initiative]]	+	[[Category: PSI, Protein structure initiative]]
-	~~[[Category: Psi]]~~	+
-	~~[[Category: Structural genomic~~]]	+

OCA at 08:36, 28 September 2014

2014-09-28T08:36:16Z

←Older revision		Revision as of 08:36, 28 September 2014
Line 1:		Line 1:
-	[[~~Image~~:1f5s.~~png\|left~~\|200px]]	+	==CRYSTAL STRUCTURE OF PHOSPHOSERINE PHOSPHATASE FROM METHANOCOCCUS JANNASCHII==
		+	<StructureSection load='1f5s' size='340' side='right' caption='[[1f5s]], [[Resolution\|resolution]] 1.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1f5s]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F5S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1F5S FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene><br>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phosphoserine_phosphatase Phosphoserine phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.3 3.1.3.3] </span></td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1f5s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f5s OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1f5s RCSB], [http://www.ebi.ac.uk/pdbsum/1f5s PDBsum], [http://www.topsan.org/Proteins/BSGC/1f5s TOPSAN]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/f5/1f5s_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	BACKGROUND: D-Serine is a co-agonist of the N-methyl-D-aspartate subtype of glutamate receptors, a major neurotransmitter receptor family in mammalian nervous systems. D-Serine is converted from L-serine, 90% of which is the product of the enzyme phosphoserine phosphatase (PSP). PSP from M. jannaschii (MJ) shares significant sequence homology with human PSP. PSPs and P-type ATPases are members of the haloacid dehalogenase (HAD)-like hydrolase family, and all members share three conserved sequence motifs. PSP and P-type ATPases utilize a common mechanism that involves Mg(2+)-dependent phosphorylation and autodephosphorylation at an aspartyl side chain in the active site. The strong resemblance in sequence and mechanism implies structural similarity among these enzymes. RESULTS: The PSP crystal structure resembles the NAD(P) binding Rossmann fold with a large insertion of a four-helix-bundle domain and a beta hairpin. Three known conserved sequence motifs are arranged next to each other in space and outline the active site. A phosphate and a magnesium ion are bound to the active site. The active site is within a closed environment between the core alpha/beta domain and the four-helix-bundle domain. CONCLUSIONS: The crystal structure of MJ PSP was determined at 1.8 A resolution. Critical residues were assigned based on the active site structure and ligand binding geometry. The PSP structure is in a closed conformation that may resemble the phosphoserine bound state or the state after autodephosphorylation. Compared to a P-type ATPase (Ca(2+)-ATPase) structure, which is in an open state, this PSP structure appears also to be a good model for the closed conformation of P-type ATPase.

-	~~{{STRUCTURE_1f5s\| PDB=1f5s \| SCENE= }}~~	+	Crystal structure of phosphoserine phosphatase from Methanococcus jannaschii, a hyperthermophile, at 1.8 A resolution.,Wang W, Kim R, Jancarik J, Yokota H, Kim SH Structure. 2001 Jan 10;9(1):65-71. PMID:11342136<ref>PMID:11342136</ref>

-	~~===CRYSTAL STRUCTURE OF PHOSPHOSERINE PHOSPHATASE FROM METHANOCOCCUS JANNASCHII===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_11342136}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1f5s]] is~~ a ~~2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1F5S OCA].~~	+

	==See Also==		==See Also==
	*[[Phosphoserine phosphatase\|Phosphoserine phosphatase]]		*[[Phosphoserine phosphatase\|Phosphoserine phosphatase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:011342136<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Methanocaldococcus jannaschii]]		[[Category: Methanocaldococcus jannaschii]]
	[[Category: Phosphoserine phosphatase]]		[[Category: Phosphoserine phosphatase]]

OCA at 07:32, 20 October 2012

2012-10-20T07:32:06Z

←Older revision		Revision as of 07:32, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[1f5s]] is a 2 chain structure ~~of [[Phosphoserine phosphatase]]~~ with sequence from [http://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F5S OCA].	+	[[1f5s]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F5S OCA].

	==See Also==		==See Also==

OCA: Protected "1f5s" [edit=sysop:move=sysop]

2012-07-25T16:37:52Z

Protected "1f5s" [edit=sysop:move=sysop]

←Older revision

Revision as of 16:37, 25 July 2012