1l5x - Revision history

OCA at 08:06, 3 April 2024

OCA — Wed, 03 Apr 2024 08:06:33 GMT

←Older revision		Revision as of 08:06, 3 April 2024
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	<StructureSection load='1l5x' size='340' side='right'caption='[[1l5x]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='1l5x' size='340' side='right'caption='[[1l5x]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1l5x]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Atcc_51768 Atcc 51768~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1L5X OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1L5X FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1l5x]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrobaculum_aerophilum Pyrobaculum aerophilum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1L5X OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1L5X FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>~~, ~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</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='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~MSE~~:~~SELENOMETHIONINE~~'>~~MSE~~</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b~~></td>~~<td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1j9j\|1j9j]]~~, ~~[[1ilv\|1ilv]], [[1j9l\|1j9l]], [[1j9k\|1j9k]]~~<~~/div></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=1l5x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1l5x OCA], [https://pdbe.org/1l5x PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1l5x RCSB], [https://www.ebi.ac.uk/pdbsum/1l5x PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1l5x ProSAT]</span></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">PAE2908 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13773 ATCC 51768])~~</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=1l5x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1l5x OCA], [~~http~~://pdbe.org/1l5x PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1l5x RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1l5x PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1l5x ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/SURE1_PYRAE SURE1_PYRAE]] Nucleotidase that shows the greatest phosphatase activity on purine (deoxy)nucleoside 5'-monophosphates, particularly the substrates 5'-GMP, 5'-AMP and 2'-deoxy-5'-AMP.<ref>PMID:12595266</ref>	+	[https://www.uniprot.org/uniprot/SURE1_PYRAE SURE1_PYRAE] Nucleotidase that shows the greatest phosphatase activity on purine (deoxy)nucleoside 5'-monophosphates, particularly the substrates 5'-GMP, 5'-AMP and 2'-deoxy-5'-AMP.<ref>PMID:12595266</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</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=1l5x 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=1l5x ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The survival protein E (SurE) family was discovered by its correlation to stationary phase survival of Escherichia coli and various repair proteins involved in sustaining this and other stress-response phenotypes. In order to better understand this ancient and well-conserved protein family, we have determined the 2.0A resolution crystal structure of SurEalpha from the hyperthermophilic crenarchaeon Pyrobaculum aerophilum (Pae). This first structure of an archaeal SurE reveals significant similarities to and differences from the only other known SurE structure, that from the eubacterium Thermatoga maritima (Tma). Both SurE monomers adopt similar folds; however, unlike the Tma SurE dimer, crystalline Pae SurEalpha is predominantly non-domain swapped. Comparative structural analyses of Tma and Pae SurE suggest conformationally variant regions, such as a hinge loop that may be involved in domain swapping. The putative SurE active site is highly conserved, and implies a model for SurE bound to a potential substrate, guanosine-5'-monophosphate (GMP). Pae SurEalpha has optimal acid phosphatase activity at temperatures above 90 degrees C, and is less specific than Tma SurE in terms of metal ion requirements. Substrate specificity also differs between Pae and Tma SurE, with a more specific recognition of purine nucleotides by the archaeal enzyme. Analyses of the sequences, phylogenetic distribution, and genomic organization of the SurE family reveal examples of genomes encoding multiple surE genes, and suggest that SurE homologs constitute a broad family of enzymes with phosphatase-like activities.
-
-	Structure and function of an archaeal homolog of survival protein E (SurEalpha): an acid phosphatase with purine nucleotide specificity.,Mura C, Katz JE, Clarke SG, Eisenberg D J Mol Biol. 2003 Mar 7;326(5):1559-75. PMID:12595266<ref>PMID:12595266</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1l5x" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Atcc 51768]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Clarke, S G~~]]	+	[[Category: Pyrobaculum aerophilum]]
-	[[Category: ~~Eisenberg, D~~]]	+	[[Category: Clarke SG]]
-	[[Category: ~~Katz, J E~~]]	+	[[Category: Eisenberg D]]
-	[[Category: ~~Mura, C~~]]	+	[[Category: Katz JE]]
-	[[Category: ~~Mixed alpha/beta protein]]~~	+	[[Category: Mura C]]
-	~~[[Category: N-terminal rossmann-fold like]]~~	+
-	~~[[Category: Novel c-terminal domain with beta-hairpin extension]]~~	+
-	~~[[Category: Putative acid phosphatase]]~~	+
-	~~[[Category: Structural genomic]]~~	+
-	~~[[Category: Unknown function~~]]	+

OCA at 07:55, 25 November 2020

OCA — Wed, 25 Nov 2020 07:55:21 GMT

←Older revision		Revision as of 07:55, 25 November 2020
Line 1:		Line 1:

	==The 2.0-Angstrom resolution crystal structure of a survival protein E (SurE) homolog from Pyrobaculum aerophilum==		==The 2.0-Angstrom resolution crystal structure of a survival protein E (SurE) homolog from Pyrobaculum aerophilum==
-	<StructureSection load='1l5x' size='340' side='right' caption='[[1l5x]], [[Resolution\|resolution]] 2.00Å' scene=''>	+	<StructureSection load='1l5x' size='340' side='right'caption='[[1l5x]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1l5x]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_51768 Atcc 51768]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1L5X OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1L5X FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1l5x]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_51768 Atcc 51768]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1L5X OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1L5X FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1j9j\|1j9j]], [[1ilv\|1ilv]], [[1j9l\|1j9l]], [[1j9k\|1j9k]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1j9j\|1j9j]], [[1ilv\|1ilv]], [[1j9l\|1j9l]], [[1j9k\|1j9k]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PAE2908 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13773 ATCC 51768])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PAE2908 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13773 ATCC 51768])</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=1l5x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1l5x OCA], [http://pdbe.org/1l5x PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1l5x RCSB], [http://www.ebi.ac.uk/pdbsum/1l5x PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1l5x 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=1l5x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1l5x OCA], [http://pdbe.org/1l5x PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1l5x RCSB], [http://www.ebi.ac.uk/pdbsum/1l5x PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1l5x ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 16:		Line 16:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/l5/1l5x_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/l5/1l5x_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 36:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Atcc 51768]]		[[Category: Atcc 51768]]
		+	[[Category: Large Structures]]
	[[Category: Clarke, S G]]		[[Category: Clarke, S G]]
	[[Category: Eisenberg, D]]		[[Category: Eisenberg, D]]

OCA at 10:55, 18 October 2017

OCA — Wed, 18 Oct 2017 10:55:11 GMT

←Older revision		Revision as of 10:55, 18 October 2017
Line 1:		Line 1:
		+
	==The 2.0-Angstrom resolution crystal structure of a survival protein E (SurE) homolog from Pyrobaculum aerophilum==		==The 2.0-Angstrom resolution crystal structure of a survival protein E (SurE) homolog from Pyrobaculum aerophilum==
	<StructureSection load='1l5x' size='340' side='right' caption='[[1l5x]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='1l5x' size='340' side='right' caption='[[1l5x]], [[Resolution\|resolution]] 2.00Å' scene=''>
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	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1j9j\|1j9j]], [[1ilv\|1ilv]], [[1j9l\|1j9l]], [[1j9k\|1j9k]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1j9j\|1j9j]], [[1ilv\|1ilv]], [[1j9l\|1j9l]], [[1j9k\|1j9k]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PAE2908 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13773 ATCC 51768])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PAE2908 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13773 ATCC 51768])</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=1l5x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1l5x OCA], [http://pdbe.org/1l5x PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1l5x RCSB], [http://www.ebi.ac.uk/pdbsum/1l5x 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=1l5x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1l5x OCA], [http://pdbe.org/1l5x PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1l5x RCSB], [http://www.ebi.ac.uk/pdbsum/1l5x PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1l5x ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 20:
	<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=1l5x ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 12:34, 11 September 2015

OCA — Fri, 11 Sep 2015 12:34:55 GMT

←Older revision		Revision as of 12:34, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1l5x' size='340' side='right' caption='[[1l5x]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='1l5x' size='340' side='right' caption='[[1l5x]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1l5x]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Pyrobaculum_aerophilum Pyrobaculum aerophilum~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1L5X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1L5X FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1l5x]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_51768 Atcc 51768]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1L5X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1L5X FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1j9j\|1j9j]], [[1ilv\|1ilv]], [[1j9l\|1j9l]], [[1j9k\|1j9k]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1j9j\|1j9j]], [[1ilv\|1ilv]], [[1j9l\|1j9l]], [[1j9k\|1j9k]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PAE2908 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13773 ~~Pyrobaculum aerophilum~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PAE2908 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13773 ATCC 51768])</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=1l5x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1l5x OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1l5x RCSB], [http://www.ebi.ac.uk/pdbsum/1l5x 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=1l5x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1l5x OCA], [http://pdbe.org/1l5x PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1l5x RCSB], [http://www.ebi.ac.uk/pdbsum/1l5x PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 29:		Line 29:
	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 1l5x" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Pyrobaculum aerophilum~~]]	+	[[Category: Atcc 51768]]
	[[Category: Clarke, S G]]		[[Category: Clarke, S G]]
	[[Category: Eisenberg, D]]		[[Category: Eisenberg, D]]

OCA at 16:30, 25 December 2014

OCA — Thu, 25 Dec 2014 16:30:41 GMT

←Older revision		Revision as of 16:30, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1l5x]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrobaculum_aerophilum Pyrobaculum aerophilum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1L5X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1L5X FirstGlance]. <br>		<table><tr><td colspan='2'>[[1l5x]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrobaculum_aerophilum Pyrobaculum aerophilum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1L5X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1L5X FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1j9j\|1j9j]], [[1ilv\|1ilv]], [[1j9l\|1j9l]], [[1j9k\|1j9k]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1j9j\|1j9j]], [[1ilv\|1ilv]], [[1j9l\|1j9l]], [[1j9k\|1j9k]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PAE2908 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13773 Pyrobaculum aerophilum])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PAE2908 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13773 Pyrobaculum aerophilum])</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=1l5x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1l5x OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1l5x RCSB], [http://www.ebi.ac.uk/pdbsum/1l5x 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=1l5x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1l5x OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1l5x RCSB], [http://www.ebi.ac.uk/pdbsum/1l5x PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/SURE1_PYRAE SURE1_PYRAE]] Nucleotidase that shows the greatest phosphatase activity on purine (deoxy)nucleoside 5'-monophosphates, particularly the substrates 5'-GMP, 5'-AMP and 2'-deoxy-5'-AMP.<ref>PMID:12595266</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 34:
	</StructureSection>		</StructureSection>
	[[Category: Pyrobaculum aerophilum]]		[[Category: Pyrobaculum aerophilum]]
-	[[Category: Clarke, S G.]]	+	[[Category: Clarke, S G]]
-	[[Category: Eisenberg, D.]]	+	[[Category: Eisenberg, D]]
-	[[Category: Katz, J E.]]	+	[[Category: Katz, J E]]
-	[[Category: Mura, C.]]	+	[[Category: Mura, C]]
	[[Category: Mixed alpha/beta protein]]		[[Category: Mixed alpha/beta protein]]
	[[Category: N-terminal rossmann-fold like]]		[[Category: N-terminal rossmann-fold like]]

OCA at 14:43, 28 September 2014

OCA — Sun, 28 Sep 2014 14:43:18 GMT

←Older revision		Revision as of 14:43, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1l5x.~~png~~\|~~left~~\|200px]]	+	==The 2.0-Angstrom resolution crystal structure of a survival protein E (SurE) homolog from Pyrobaculum aerophilum==
		+	<StructureSection load='1l5x' size='340' side='right' caption='[[1l5x]], [[Resolution\|resolution]] 2.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1l5x]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrobaculum_aerophilum Pyrobaculum aerophilum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1L5X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1L5X FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1j9j\|1j9j]], [[1ilv\|1ilv]], [[1j9l\|1j9l]], [[1j9k\|1j9k]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PAE2908 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13773 Pyrobaculum aerophilum])</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=1l5x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1l5x OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1l5x RCSB], [http://www.ebi.ac.uk/pdbsum/1l5x PDBsum]</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/l5/1l5x_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 ==
		+	The survival protein E (SurE) family was discovered by its correlation to stationary phase survival of Escherichia coli and various repair proteins involved in sustaining this and other stress-response phenotypes. In order to better understand this ancient and well-conserved protein family, we have determined the 2.0A resolution crystal structure of SurEalpha from the hyperthermophilic crenarchaeon Pyrobaculum aerophilum (Pae). This first structure of an archaeal SurE reveals significant similarities to and differences from the only other known SurE structure, that from the eubacterium Thermatoga maritima (Tma). Both SurE monomers adopt similar folds; however, unlike the Tma SurE dimer, crystalline Pae SurEalpha is predominantly non-domain swapped. Comparative structural analyses of Tma and Pae SurE suggest conformationally variant regions, such as a hinge loop that may be involved in domain swapping. The putative SurE active site is highly conserved, and implies a model for SurE bound to a potential substrate, guanosine-5'-monophosphate (GMP). Pae SurEalpha has optimal acid phosphatase activity at temperatures above 90 degrees C, and is less specific than Tma SurE in terms of metal ion requirements. Substrate specificity also differs between Pae and Tma SurE, with a more specific recognition of purine nucleotides by the archaeal enzyme. Analyses of the sequences, phylogenetic distribution, and genomic organization of the SurE family reveal examples of genomes encoding multiple surE genes, and suggest that SurE homologs constitute a broad family of enzymes with phosphatase-like activities.

-	~~{{STRUCTURE_1l5x\| PDB=1l5x \| SCENE= }}~~	+	Structure and function of an archaeal homolog of survival protein E (SurEalpha): an acid phosphatase with purine nucleotide specificity.,Mura C, Katz JE, Clarke SG, Eisenberg D J Mol Biol. 2003 Mar 7;326(5):1559-75. PMID:12595266<ref>PMID:12595266</ref>

-	~~===The 2.0-Angstrom resolution crystal structure~~ of ~~a survival protein E (SurE) homolog from Pyrobaculum aerophilum===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_12595266}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1l5x]] is a 2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Pyrobaculum_aerophilum Pyrobaculum aerophilum]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1L5X OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:012595266<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Pyrobaculum aerophilum]]		[[Category: Pyrobaculum aerophilum]]
	[[Category: Clarke, S G.]]		[[Category: Clarke, S G.]]

OCA: Protected "1l5x" [edit=sysop:move=sysop]

OCA — Wed, 05 Dec 2012 20:26:42 GMT

Protected "1l5x" [edit=sysop:move=sysop]

←Older revision

Revision as of 20:26, 5 December 2012

OCA at 20:26, 5 December 2012

OCA — Wed, 05 Dec 2012 20:26:39 GMT

←Older revision		Revision as of 20:26, 5 December 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1l5x.png\|left\|200px]]		[[Image:1l5x.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1l5x", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_1l5x\| PDB=1l5x \| SCENE= }}		{{STRUCTURE_1l5x\| PDB=1l5x \| SCENE= }}

	===The 2.0-Angstrom resolution crystal structure of a survival protein E (SurE) homolog from Pyrobaculum aerophilum===		===The 2.0-Angstrom resolution crystal structure of a survival protein E (SurE) homolog from Pyrobaculum aerophilum===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_12595266}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 12595266 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_12595266}}		{{ABSTRACT_PUBMED_12595266}}

	==About this Structure==		==About this Structure==
-	~~1L5X~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Pyrobaculum_aerophilum Pyrobaculum aerophilum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1L5X OCA].	+	[[1l5x]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrobaculum_aerophilum Pyrobaculum aerophilum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1L5X OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~12595266~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:012595266</ref><references group="xtra"/>
	[[Category: Pyrobaculum aerophilum]]		[[Category: Pyrobaculum aerophilum]]
	[[Category: Clarke, S G.]]		[[Category: Clarke, S G.]]
Line 34:		Line 22:
	[[Category: Putative acid phosphatase]]		[[Category: Putative acid phosphatase]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
-		+	[[Category: Unknown function]]
-	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Tue Feb 17 21:49:23 2009''~~	+

OCA at 19:49, 17 February 2009

OCA — Tue, 17 Feb 2009 19:49:24 GMT

←Older revision		Revision as of 19:49, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	1L5X is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Pyrobaculum_aerophilum Pyrobaculum aerophilum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1L5X OCA].	+	1L5X is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Pyrobaculum_aerophilum Pyrobaculum aerophilum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1L5X OCA].

	==Reference==		==Reference==
-	Structure and function of an archaeal homolog of survival protein E (SurEalpha): an acid phosphatase with purine nucleotide specificity., Mura C, Katz JE, Clarke SG, Eisenberg D, J Mol Biol. 2003 Mar 7;326(5):1559-75. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/12595266 12595266]~~	+	<ref group="xtra">PMID:12595266</ref><references group="xtra"/>
	[[Category: Pyrobaculum aerophilum]]		[[Category: Pyrobaculum aerophilum]]
-	[[Category: Single protein]]
	[[Category: Clarke, S G.]]		[[Category: Clarke, S G.]]
	[[Category: Eisenberg, D.]]		[[Category: Eisenberg, D.]]
Line 36:		Line 35:
	[[Category: Structural genomic]]		[[Category: Structural genomic]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed Jul 2 11~~:46:~~47 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 21:49:23 2009''

OCA at 08:46, 2 July 2008

OCA — Wed, 02 Jul 2008 08:46:48 GMT

←Older revision		Revision as of 08:46, 2 July 2008
Line 1:		Line 1:
-	[[Image:1l5x.~~jpg~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:1l5x.png\|left\|200px]]

	<!--		<!--
Line 9:		Line 10:
	{{STRUCTURE_1l5x\| PDB=1l5x \| SCENE= }}		{{STRUCTURE_1l5x\| PDB=1l5x \| SCENE= }}

-	~~'''~~The 2.0-Angstrom resolution crystal structure of a survival protein E (SurE) homolog from Pyrobaculum aerophilum~~'''~~	+	===The 2.0-Angstrom resolution crystal structure of a survival protein E (SurE) homolog from Pyrobaculum aerophilum===


-	~~==Overview==~~	+	<!--
-	The ~~survival protein E (SurE) family was discovered by its correlation to stationary phase survival of Escherichia coli and various repair proteins involved in sustaining~~ this ~~and other stress-response phenotypes. In order to better understand this ancient and well-conserved protein family~~, ~~we have determined~~ the ~~2.0A resolution crystal structure of SurEalpha from the hyperthermophilic crenarchaeon Pyrobaculum aerophilum (Pae). This first structure of an archaeal SurE reveals significant similarities~~ to ~~and differences from~~ the ~~only other known SurE structure, that from the eubacterium Thermatoga maritima~~ (~~Tma)~~. ~~Both SurE monomers adopt similar folds; however, unlike the Tma SurE dimer, crystalline Pae SurEalpha is predominantly non-domain swapped~~. Comparative structural analyses of Tma and Pae SurE suggest conformationally variant regions, such as a hinge loop that may be involved in domain swapping. The putative SurE active site is highly conserved, and implies a model for SurE bound to a potential substrate, guanosine-5'-monophosphate (GMP)~~. Pae SurEalpha has optimal acid phosphatase activity at temperatures above 90 degrees C~~, ~~and~~ is ~~less specific than Tma SurE in terms of metal ion requirements. Substrate specificity also differs between Pae and Tma SurE, with a more specific recognition of purine nucleotides by~~ the ~~archaeal enzyme~~. Analyses of the sequences, phylogenetic distribution, and genomic organization of the SurE family reveal examples of genomes encoding multiple surE genes, and suggest that SurE homologs constitute a broad family of enzymes with phosphatase-~~like activities.~~	+	The line below this paragraph, {{ABSTRACT_PUBMED_12595266}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 12595266 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_12595266}}

	==About this Structure==		==About this Structure==
Line 31:		Line 35:
	[[Category: Putative acid phosphatase]]		[[Category: Putative acid phosphatase]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Fri May~~ 2 23:34:43 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 2 11:46:47 2008''