2k1g - Revision history

OCA at 06:43, 1 May 2024

OCA — Wed, 01 May 2024 06:43:36 GMT

←Older revision		Revision as of 06:43, 1 May 2024
Line 1:		Line 1:

	==Solution NMR structure of lipoprotein spr from Escherichia coli K12. Northeast Structural Genomics target ER541-37-162==		==Solution NMR structure of lipoprotein spr from Escherichia coli K12. Northeast Structural Genomics target ER541-37-162==
-	<StructureSection load='2k1g' size='340' side='right'caption='[[2k1g~~]], [[NMR_Ensembles_of_Models \| 20 NMR models~~]]' scene=''>	+	<StructureSection load='2k1g' size='340' side='right'caption='[[2k1g]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2k1g]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Ecoli Ecoli~~]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2jyx 2jyx]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K1G OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2K1G FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2k1g]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2jyx 2jyx]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K1G OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2K1G FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>spr, yeiV, b2175, JW2163 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~83333 ECOLI])~~</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'>[https://proteopedia.org/fgij/fg.htm?mol=2k1g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k1g OCA], [https://pdbe.org/2k1g PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2k1g RCSB], [https://www.ebi.ac.uk/pdbsum/2k1g PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2k1g ProSAT], [https://www.topsan.org/Proteins/NESGC/2k1g 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=2k1g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k1g OCA], [https://pdbe.org/2k1g PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2k1g RCSB], [https://www.ebi.ac.uk/pdbsum/2k1g PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2k1g ProSAT], [https://www.topsan.org/Proteins/NESGC/2k1g TOPSAN]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/MEPS_ECOLI MEPS_ECOLI] A murein DD-endopeptidase with specificity for D-Ala-meso-diaminopimelic acid (mDAP) cross-links. Its role is probably to cleave D-Ala-mDAP cross-links to allow insertion of new glycans and thus cell wall expansion. Functionally redundant with MepM and MepH. Also has weak LD-carboxypeptidase activity on L-mDAP-D-Ala peptide bonds. Partially suppresses a prc disruption mutant.<ref>PMID:23062283</ref> <ref>PMID:9158724</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 17:		Line 19:
	</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=2k1g 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=2k1g ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Escherichia coli Spr is a membrane-anchored cell wall hydrolase. The solution NMR structure of the C-terminal NlpC/P60 domain of E. coli Spr described here reveals that the protein adopts a papain-like alpha+beta fold and identifies a substrate-binding cleft featuring several highly conserved residues. The active site features a novel Cys-His-His catalytic triad that appears to be a unique structural signature of this cysteine peptidase family. Moreover, the relative orientation of these catalytic residues is similar to that observed in the analogous Ser-His-His triad, a variant of the classic Ser-His-Asp charge relay system, suggesting the convergent evolution of a catalytic mechanism in quite distinct peptidase families.
-
-	Solution NMR structure of the NlpC/P60 domain of lipoprotein Spr from Escherichia coli: structural evidence for a novel cysteine peptidase catalytic triad.,Aramini JM, Rossi P, Huang YJ, Zhao L, Jiang M, Maglaqui M, Xiao R, Locke J, Nair R, Rost B, Acton TB, Inouye M, Montelione GT Biochemistry. 2008 Sep 16;47(37):9715-7. Epub 2008 Aug 21. PMID:18715016<ref>PMID:18715016</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 2k1g" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Ecoli~~]]	+	[[Category: Escherichia coli K-12]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Acton~~, T B~~]]	+	[[Category: Acton TB]]
-	[[Category: Aramini~~, J M~~]]	+	[[Category: Aramini JM]]
-	[[Category: Baran~~, M C~~]]	+	[[Category: Baran MC]]
-	[[Category: Huang~~, Y J~~]]	+	[[Category: Huang YJ]]
-	[[Category: Jiang, M]]	+	[[Category: Jiang M]]
-	[[Category: Liu, J]]	+	[[Category: Liu J]]
-	[[Category: Maglaqui, M]]	+	[[Category: Maglaqui M]]
-	[[Category: Montelione~~, G T]]~~	+	[[Category: Montelione GT]]
-	~~[[Category: Structural genomic~~]]	+	[[Category: Rossi P]]
-	[[Category: Rossi, P]]	+	[[Category: Rost B]]
-	[[Category: Rost, B]]	+	[[Category: Swapna GVT]]
-	[[Category: Swapna~~, G V.T~~]]	+	[[Category: Xiao R]]
-	[[Category: Xiao, R]]	+	[[Category: Zhao L]]
-	[[Category: Zhao, L]]	+
-	~~[[Category: Bacterial lipoprotein]]~~	+
-	~~[[Category: Construct optimized]]~~	+
-	~~[[Category: Cysteine peptidase]]~~	+
-	~~[[Category: Lipoprotein]]~~	+
-	~~[[Category: Membrane]]~~	+
-	~~[[Category: Nesg]]~~	+
-	~~[[Category: Nplc/p60 family]]~~	+
-	~~[[Category: Palmitate]]~~	+
-	~~[[Category: PSI, Protein structure initiative]]~~	+
-	~~[[Category: Solution nmr structure~~]]	+

OCA at 08:05, 7 April 2021

OCA — Wed, 07 Apr 2021 08:05:11 GMT

←Older revision		Revision as of 08:05, 7 April 2021
Line 1:		Line 1:

	==Solution NMR structure of lipoprotein spr from Escherichia coli K12. Northeast Structural Genomics target ER541-37-162==		==Solution NMR structure of lipoprotein spr from Escherichia coli K12. Northeast Structural Genomics target ER541-37-162==
-	<StructureSection load='2k1g' size='340' side='right' caption='[[2k1g]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>	+	<StructureSection load='2k1g' size='340' side='right'caption='[[2k1g]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2k1g]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Ecoli Ecoli]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2jyx 2jyx]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K1G OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2K1G FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2k1g]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Ecoli Ecoli]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2jyx 2jyx]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K1G OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2K1G FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">spr, yeiV, b2175, JW2163 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">spr, yeiV, b2175, JW2163 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</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=2k1g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k1g OCA], [~~http~~://pdbe.org/2k1g PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2k1g RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2k1g PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2k1g ProSAT], [~~http~~://www.topsan.org/Proteins/NESGC/2k1g 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=2k1g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k1g OCA], [https://pdbe.org/2k1g PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2k1g RCSB], [https://www.ebi.ac.uk/pdbsum/2k1g PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2k1g ProSAT], [https://www.topsan.org/Proteins/NESGC/2k1g TOPSAN]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 31:		Line 31:
	</StructureSection>		</StructureSection>
	[[Category: Ecoli]]		[[Category: Ecoli]]
		+	[[Category: Large Structures]]
	[[Category: Acton, T B]]		[[Category: Acton, T B]]
	[[Category: Aramini, J M]]		[[Category: Aramini, J M]]

OCA at 10:48, 18 July 2018

OCA — Wed, 18 Jul 2018 10:48:26 GMT

←Older revision		Revision as of 10:48, 18 July 2018
Line 1:		Line 1:
		+
	==Solution NMR structure of lipoprotein spr from Escherichia coli K12. Northeast Structural Genomics target ER541-37-162==		==Solution NMR structure of lipoprotein spr from Escherichia coli K12. Northeast Structural Genomics target ER541-37-162==
	<StructureSection load='2k1g' size='340' side='right' caption='[[2k1g]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='2k1g' size='340' side='right' caption='[[2k1g]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[2k1g]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2jyx 2jyx]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K1G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2K1G FirstGlance]. <br>		<table><tr><td colspan='2'>[[2k1g]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2jyx 2jyx]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K1G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2K1G FirstGlance]. <br>
	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">spr, yeiV, b2175, JW2163 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</td></tr>		</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">spr, yeiV, b2175, JW2163 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</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=2k1g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k1g OCA], [http://pdbe.org/2k1g PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2k1g RCSB], [http://www.ebi.ac.uk/pdbsum/2k1g PDBsum], [http://www.topsan.org/Proteins/NESGC/2k1g 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=2k1g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k1g OCA], [http://pdbe.org/2k1g PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2k1g RCSB], [http://www.ebi.ac.uk/pdbsum/2k1g PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2k1g ProSAT], [http://www.topsan.org/Proteins/NESGC/2k1g TOPSAN]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 10:		Line 11:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/k1/2k1g_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/k1/2k1g_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>

OCA at 13:17, 8 February 2016

OCA — Mon, 08 Feb 2016 13:17:03 GMT

←Older revision		Revision as of 13:17, 8 February 2016
Line 14:		Line 14:
	<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=2k1g ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 11:56, 10 September 2015

OCA — Thu, 10 Sep 2015 11:56:24 GMT

←Older revision		Revision as of 11:56, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='2k1g' size='340' side='right' caption='[[2k1g]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='2k1g' size='340' side='right' caption='[[2k1g]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2k1g]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Escherichia_coli Escherichia coli~~]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2jyx 2jyx]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K1G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2K1G FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2k1g]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2jyx 2jyx]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K1G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2K1G FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">spr, yeiV, b2175, JW2163 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=~~562 Escherichia coli~~])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">spr, yeiV, b2175, JW2163 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</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=2k1g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k1g OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2k1g RCSB], [http://www.ebi.ac.uk/pdbsum/2k1g PDBsum], [http://www.topsan.org/Proteins/NESGC/2k1g 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=2k1g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k1g OCA], [http://pdbe.org/2k1g PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2k1g RCSB], [http://www.ebi.ac.uk/pdbsum/2k1g PDBsum], [http://www.topsan.org/Proteins/NESGC/2k1g TOPSAN]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 24:		Line 24:
	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 2k1g" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Escherichia coli~~]]	+	[[Category: Ecoli]]
	[[Category: Acton, T B]]		[[Category: Acton, T B]]
	[[Category: Aramini, J M]]		[[Category: Aramini, J M]]

OCA at 16:47, 19 January 2015

OCA — Mon, 19 Jan 2015 16:47:08 GMT

←Older revision		Revision as of 16:47, 19 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2k1g]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2jyx 2jyx]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K1G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2K1G FirstGlance]. <br>		<table><tr><td colspan='2'>[[2k1g]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2jyx 2jyx]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K1G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2K1G FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">spr, yeiV, b2175, JW2163 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">spr, yeiV, b2175, JW2163 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</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=2k1g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k1g OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2k1g RCSB], [http://www.ebi.ac.uk/pdbsum/2k1g PDBsum], [http://www.topsan.org/Proteins/NESGC/2k1g 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=2k1g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k1g OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2k1g RCSB], [http://www.ebi.ac.uk/pdbsum/2k1g PDBsum], [http://www.topsan.org/Proteins/NESGC/2k1g 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 29:		Line 29:
	</StructureSection>		</StructureSection>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
-	[[Category: Acton, T B.]]	+	[[Category: Acton, T B]]
-	[[Category: Aramini, J M.]]	+	[[Category: Aramini, J M]]
-	[[Category: Baran, M C.]]	+	[[Category: Baran, M C]]
-	[[Category: Huang, Y J.]]	+	[[Category: Huang, Y J]]
-	[[Category: Jiang, M.]]	+	[[Category: Jiang, M]]
-	[[Category: Liu, J.]]	+	[[Category: Liu, J]]
-	[[Category: Maglaqui, M.]]	+	[[Category: Maglaqui, M]]
-	[[Category: Montelione, G T.]]	+	[[Category: Montelione, G T]]
-	[[Category: ~~NESG, Northeast~~ Structural ~~Genomics Consortium.~~]]	+	[[Category: Structural genomic]]
-	[[Category: Rossi, P.]]	+	[[Category: Rossi, P]]
-	[[Category: Rost, B.]]	+	[[Category: Rost, B]]
-	[[Category: Swapna, G V.T.]]	+	[[Category: Swapna, G V.T]]
-	[[Category: Xiao, R.]]	+	[[Category: Xiao, R]]
-	[[Category: Zhao, L.]]	+	[[Category: Zhao, L]]
	[[Category: Bacterial lipoprotein]]		[[Category: Bacterial lipoprotein]]
	[[Category: Construct optimized]]		[[Category: Construct optimized]]
Line 49:		Line 49:
	[[Category: Membrane]]		[[Category: Membrane]]
	[[Category: Nesg]]		[[Category: Nesg]]
-	[[Category: Northeast structural genomics consortium]]
	[[Category: Nplc/p60 family]]		[[Category: Nplc/p60 family]]
	[[Category: Palmitate]]		[[Category: Palmitate]]
-	[[Category: Protein structure initiative]]	+	[[Category: PSI, Protein structure initiative]]
-	~~[[Category: Psi-2~~]]	+
	[[Category: Solution nmr structure]]		[[Category: Solution nmr structure]]
-	[[Category: Structural genomic]]

OCA at 09:33, 30 September 2014

OCA — Tue, 30 Sep 2014 09:33:38 GMT

←Older revision		Revision as of 09:33, 30 September 2014
Line 1:		Line 1:
-	[[~~Image~~:2k1g.~~png\|left~~\|200px]]	+	==Solution NMR structure of lipoprotein spr from Escherichia coli K12. Northeast Structural Genomics target ER541-37-162==
		+	<StructureSection load='2k1g' size='340' side='right' caption='[[2k1g]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2k1g]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2jyx 2jyx]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K1G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2K1G FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">spr, yeiV, b2175, JW2163 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</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=2k1g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k1g OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2k1g RCSB], [http://www.ebi.ac.uk/pdbsum/2k1g PDBsum], [http://www.topsan.org/Proteins/NESGC/2k1g 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/k1/2k1g_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 ==
		+	Escherichia coli Spr is a membrane-anchored cell wall hydrolase. The solution NMR structure of the C-terminal NlpC/P60 domain of E. coli Spr described here reveals that the protein adopts a papain-like alpha+beta fold and identifies a substrate-binding cleft featuring several highly conserved residues. The active site features a novel Cys-His-His catalytic triad that appears to be a unique structural signature of this cysteine peptidase family. Moreover, the relative orientation of these catalytic residues is similar to that observed in the analogous Ser-His-His triad, a variant of the classic Ser-His-Asp charge relay system, suggesting the convergent evolution of a catalytic mechanism in quite distinct peptidase families.

-	~~{{STRUCTURE_2k1g\| PDB=2k1g \| SCENE= }}~~	+	Solution NMR structure of the NlpC/P60 domain of lipoprotein Spr from Escherichia coli: structural evidence for a novel cysteine peptidase catalytic triad.,Aramini JM, Rossi P, Huang YJ, Zhao L, Jiang M, Maglaqui M, Xiao R, Locke J, Nair R, Rost B, Acton TB, Inouye M, Montelione GT Biochemistry. 2008 Sep 16;47(37):9715-7. Epub 2008 Aug 21. PMID:18715016<ref>PMID:18715016</ref>

-	~~===Solution NMR structure~~ of ~~lipoprotein spr from Escherichia coli K12. Northeast Structural Genomics target ER541-37-162===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18715016}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2k1g]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. This structure supersedes~~ the ~~now removed PDB entry [http://oca~~.~~weizmann~~.ac.il/~~oca-bin/send-pdb?obs=1&id=2jyx 2jyx]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K1G OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:018715016<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Acton, T B.]]		[[Category: Acton, T B.]]

OCA: Protected "2k1g" [edit=sysop:move=sysop]

OCA — Mon, 07 Jan 2013 11:48:48 GMT

Protected "2k1g" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:48, 7 January 2013

OCA at 11:48, 7 January 2013

OCA — Mon, 07 Jan 2013 11:48:44 GMT

←Older revision		Revision as of 11:48, 7 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2k1g.png\|left\|200px]]		[[Image:2k1g.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2k1g", 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_2k1g\| PDB=2k1g \| SCENE= }}		{{STRUCTURE_2k1g\| PDB=2k1g \| SCENE= }}

	===Solution NMR structure of lipoprotein spr from Escherichia coli K12. Northeast Structural Genomics target ER541-37-162===		===Solution NMR structure of lipoprotein spr from Escherichia coli K12. Northeast Structural Genomics target ER541-37-162===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18715016}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18715016 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_18715016}}		{{ABSTRACT_PUBMED_18715016}}

	==About this Structure==		==About this Structure==
-	~~2K1G~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/~~Escherichia_coli_k12~~ Escherichia coli ~~k12~~]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2jyx 2jyx]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K1G OCA].	+	[[2k1g]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2jyx 2jyx]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K1G OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18715016~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018715016</ref><references group="xtra"/>
-	[[Category: Escherichia coli ~~k12~~]]	+	[[Category: Escherichia coli]]
	[[Category: Acton, T B.]]		[[Category: Acton, T B.]]
	[[Category: Aramini, J M.]]		[[Category: Aramini, J M.]]
Line 42:		Line 30:
	[[Category: Construct optimized]]		[[Category: Construct optimized]]
	[[Category: Cysteine peptidase]]		[[Category: Cysteine peptidase]]
		+	[[Category: Lipoprotein]]
	[[Category: Membrane]]		[[Category: Membrane]]
	[[Category: Nesg]]		[[Category: Nesg]]
Line 51:		Line 40:
	[[Category: Solution nmr structure]]		[[Category: Solution nmr structure]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jun 10 21:30:22 2009''

OCA at 18:26, 10 June 2009

OCA — Wed, 10 Jun 2009 18:26:12 GMT

←Older revision		Revision as of 18:26, 10 June 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	2K1G is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli_k12 Escherichia coli k12]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2jyx 2jyx]. Full ~~crystallographic~~ information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K1G OCA].	+	2K1G is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli_k12 Escherichia coli k12]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2jyx 2jyx]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K1G OCA].

	==Reference==		==Reference==
Line 52:		Line 52:
	[[Category: Structural genomic]]		[[Category: Structural genomic]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Mon Feb 16 22~~:22~~:11~~ 2009''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jun 10 21:30:22 2009''