2cbn - Revision history

OCA at 09:24, 9 May 2024

OCA — Thu, 09 May 2024 09:24:04 GMT

←Older revision		Revision as of 09:24, 9 May 2024
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	<StructureSection load='2cbn' size='340' side='right'caption='[[2cbn]], [[Resolution\|resolution]] 2.90Å' scene=''>		<StructureSection load='2cbn' size='340' side='right'caption='[[2cbn]], [[Resolution\|resolution]] 2.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2cbn]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacillus_coli"_migula_1895 "bacillus~~ coli~~" migula 1895~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CBN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CBN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2cbn]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CBN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CBN FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 2.9Å</td></tr>
-	<tr id='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"><~~span class~~='~~plainlinks~~'>~~[https://en.wikipedia.org/wiki/Ribonuclease_Z Ribonuclease Z], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.11 3.1.26.11]~~ </~~span~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</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=2cbn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cbn OCA], [https://pdbe.org/2cbn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2cbn RCSB], [https://www.ebi.ac.uk/pdbsum/2cbn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2cbn ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2cbn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cbn OCA], [https://pdbe.org/2cbn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2cbn RCSB], [https://www.ebi.ac.uk/pdbsum/2cbn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2cbn ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/RBN_ECOLI RBN_ECOLI] Zinc phosphodiesterase, which has both exoribonuclease and endoribonuclease activities, depending on the nature of the substrate and of the added divalent cation, and on its 3'-terminal structure. Can process the 3' termini of both CCA-less and CCA-containing tRNA precursors. CCA-less tRNAs are cleaved endonucleolytically after the discriminator base, whereas residues following the CCA sequence can be removed exonucleolytically or endonucleolytically in CCA-containing molecules. Does not remove the CCA sequence. May also be involved in the degradation of mRNAs. In vitro, hydrolyzes bis(p-nitrophenyl)phosphate and thymidine-5'-p-nitrophenyl phosphate.<ref>PMID:12029081</ref> <ref>PMID:15764599</ref> <ref>PMID:16629673</ref> <ref>PMID:19366704</ref> <ref>PMID:20489203</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus~~ coli ~~migula 1895~~]]	+	[[Category: Escherichia coli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Ribonuclease Z]]~~	+	[[Category: Kostelecky B]]
-	[[Category: Kostelecky, B]]	+	[[Category: Meyer-Klaucke W]]
-	[[Category: Meyer-Klaucke, W]]	+	[[Category: Pohl E]]
-	[[Category: Pohl, E]]	+
-	~~[[Category: Endonuclease]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Metal- binding]]~~	+
-	~~[[Category: Phosphodiesterase beta lactamase trnase z]]~~	+
-	~~[[Category: Trna processing]]~~	+
-	~~[[Category: Zinc~~]]	+

OCA at 06:52, 1 December 2021

OCA — Wed, 01 Dec 2021 06:52:21 GMT

←Older revision		Revision as of 06:52, 1 December 2021
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	<StructureSection load='2cbn' size='340' side='right'caption='[[2cbn]], [[Resolution\|resolution]] 2.90Å' scene=''>		<StructureSection load='2cbn' size='340' side='right'caption='[[2cbn]], [[Resolution\|resolution]] 2.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2cbn]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CBN OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2CBN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2cbn]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CBN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CBN FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Ribonuclease_Z Ribonuclease Z], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.11 3.1.26.11] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Ribonuclease_Z Ribonuclease Z], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.11 3.1.26.11] </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=2cbn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cbn OCA], [~~http~~://pdbe.org/2cbn PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2cbn RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2cbn PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2cbn ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2cbn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cbn OCA], [https://pdbe.org/2cbn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2cbn RCSB], [https://www.ebi.ac.uk/pdbsum/2cbn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2cbn ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	==See Also==		==See Also==
	*[[Ribonuclease 3D structures\|Ribonuclease 3D structures]]		*[[Ribonuclease 3D structures\|Ribonuclease 3D structures]]
-	*[[Temp\|Temp]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 10:50, 26 February 2020

OCA — Wed, 26 Feb 2020 10:50:41 GMT

←Older revision		Revision as of 10:50, 26 February 2020
Line 1:		Line 1:

	==Crystal structure of ZipD from Escherichia coli==		==Crystal structure of ZipD from Escherichia coli==
-	<StructureSection load='2cbn' size='340' side='right' caption='[[2cbn]], [[Resolution\|resolution]] 2.90Å' scene=''>	+	<StructureSection load='2cbn' size='340' side='right'caption='[[2cbn]], [[Resolution\|resolution]] 2.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2cbn]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CBN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CBN FirstGlance]. <br>		<table><tr><td colspan='2'>[[2cbn]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CBN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CBN FirstGlance]. <br>
Line 29:		Line 29:

	==See Also==		==See Also==
-	*[[Ribonuclease\|Ribonuclease]]	+	*[[Ribonuclease 3D structures\|Ribonuclease 3D structures]]
	*[[Temp\|Temp]]		*[[Temp\|Temp]]
	== References ==		== References ==
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	</StructureSection>		</StructureSection>
	[[Category: Bacillus coli migula 1895]]		[[Category: Bacillus coli migula 1895]]
		+	[[Category: Large Structures]]
	[[Category: Ribonuclease Z]]		[[Category: Ribonuclease Z]]
	[[Category: Kostelecky, B]]		[[Category: Kostelecky, B]]

OCA at 08:07, 23 May 2018

OCA — Wed, 23 May 2018 08:07:23 GMT

←Older revision		Revision as of 08:07, 23 May 2018
Line 1:		Line 1:
		+
	==Crystal structure of ZipD from Escherichia coli==		==Crystal structure of ZipD from Escherichia coli==
	<StructureSection load='2cbn' size='340' side='right' caption='[[2cbn]], [[Resolution\|resolution]] 2.90Å' scene=''>		<StructureSection load='2cbn' size='340' side='right' caption='[[2cbn]], [[Resolution\|resolution]] 2.90Å' scene=''>
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	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribonuclease_Z Ribonuclease Z], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.11 3.1.26.11] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribonuclease_Z Ribonuclease Z], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.11 3.1.26.11] </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=2cbn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cbn OCA], [http://pdbe.org/2cbn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2cbn RCSB], [http://www.ebi.ac.uk/pdbsum/2cbn 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=2cbn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cbn OCA], [http://pdbe.org/2cbn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2cbn RCSB], [http://www.ebi.ac.uk/pdbsum/2cbn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2cbn ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cb/2cbn_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cb/2cbn_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>
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	[[Category: Phosphodiesterase beta lactamase trnase z]]		[[Category: Phosphodiesterase beta lactamase trnase z]]
	[[Category: Trna processing]]		[[Category: Trna processing]]
		+	[[Category: Zinc]]

OCA at 16:32, 9 February 2016

OCA — Tue, 09 Feb 2016 16:32:38 GMT

←Older revision		Revision as of 16:32, 9 February 2016
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	<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=2cbn ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 00:05, 11 September 2015

OCA — Fri, 11 Sep 2015 00:05:29 GMT

←Older revision		Revision as of 00:05, 11 September 2015
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	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribonuclease_Z Ribonuclease Z], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.11 3.1.26.11] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribonuclease_Z Ribonuclease Z], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.11 3.1.26.11] </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=2cbn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cbn OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2cbn RCSB], [http://www.ebi.ac.uk/pdbsum/2cbn 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=2cbn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cbn OCA], [http://pdbe.org/2cbn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2cbn RCSB], [http://www.ebi.ac.uk/pdbsum/2cbn PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	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 2cbn" style="background-color:#fffaf0;"></div>

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

OCA at 16:16, 15 January 2015

OCA — Thu, 15 Jan 2015 16:16:30 GMT

←Older revision		Revision as of 16:16, 15 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2cbn]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CBN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CBN FirstGlance]. <br>		<table><tr><td colspan='2'>[[2cbn]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CBN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CBN FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribonuclease_Z Ribonuclease Z], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.11 3.1.26.11] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribonuclease_Z Ribonuclease Z], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.11 3.1.26.11] </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=2cbn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cbn OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2cbn RCSB], [http://www.ebi.ac.uk/pdbsum/2cbn 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=2cbn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cbn OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2cbn RCSB], [http://www.ebi.ac.uk/pdbsum/2cbn PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	==See Also==		==See Also==
	*[[Ribonuclease\|Ribonuclease]]		*[[Ribonuclease\|Ribonuclease]]
		+	*[[Temp\|Temp]]
	== References ==		== References ==
	<references/>		<references/>
Line 34:		Line 35:
	[[Category: Bacillus coli migula 1895]]		[[Category: Bacillus coli migula 1895]]
	[[Category: Ribonuclease Z]]		[[Category: Ribonuclease Z]]
-	[[Category: Kostelecky, B.]]	+	[[Category: Kostelecky, B]]
-	[[Category: Meyer-Klaucke, W.]]	+	[[Category: Meyer-Klaucke, W]]
-	[[Category: Pohl, E.]]	+	[[Category: Pohl, E]]
	[[Category: Endonuclease]]		[[Category: Endonuclease]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 09:17, 3 October 2014

OCA — Fri, 03 Oct 2014 09:17:30 GMT

←Older revision		Revision as of 09:17, 3 October 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_2cbn~~\| ~~PDB~~=2cbn \| ~~SCENE~~= }}	+	==Crystal structure of ZipD from Escherichia coli==
-	===~~Crystal~~ structure of ~~ZipD~~ from ~~Escherichia coli~~===	+	<StructureSection load='2cbn' size='340' side='right' caption='[[2cbn]], [[Resolution\|resolution]] 2.90Å' scene=''>
-	~~{{ABSTRACT_PUBMED_16452444}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2cbn]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CBN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CBN FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribonuclease_Z Ribonuclease Z], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.11 3.1.26.11] </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=2cbn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cbn OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2cbn RCSB], [http://www.ebi.ac.uk/pdbsum/2cbn 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/cb/2cbn_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 elaC gene product from Escherichia coli, ZiPD, is a 3' tRNA-processing endonuclease belonging to the tRNase Z family of enzymes that have been identified in a wide variety of organisms. In contrast to the elaC homologue from Bacillus subtilis, E. coli elaC is not essential for viability, and although both enzymes process only precursor tRNA (pre-tRNA) lacking a CCA triplet at the 3' end in vitro, the physiological role of ZiPD remains enigmatic because all pre-tRNA species in E. coli are transcribed with the CCA triplet. We present the first crystal structure of ZiPD determined by multiple anomalous diffraction at a resolution of 2.9 A. This structure shares many features with the tRNase Z enzymes from B. subtilis and Thermotoga maritima, but there are distinct differences in metal binding and overall domain organization. Unlike the previously described homologous structures, ZiPD dimers display crystallographic symmetry and fully loaded metal sites. The ZiPD exosite is similar to that of the B. subtilis enzyme structurally, but its position with respect to the protein core differs substantially, illustrating its ability to act as a clamp in binding tRNA. Furthermore, the ZiPD crystal structure presented here provides insight into the enzyme's cooperativity and assists the ongoing attempt to elucidate the physiological function of this protein.

-	~~==About this Structure==~~	+	The crystal structure of the zinc phosphodiesterase from Escherichia coli provides insight into function and cooperativity of tRNase Z-family proteins.,Kostelecky B, Pohl E, Vogel A, Schilling O, Meyer-Klaucke W J Bacteriol. 2006 Feb;188(4):1607-14. PMID:16452444<ref>PMID:16452444</ref>
-	~~[[2cbn]] is a 1 chain~~ structure ~~with sequence~~ from ~~[http://en~~.~~wikipedia~~.~~org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]~~. ~~Full crystallographic information is available from [http~~://~~oca~~.~~weizmann~~.ac.il/~~oca-bin/ocashort?id=2CBN OCA].~~	+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

	==See Also==		==See Also==
	*[[Ribonuclease\|Ribonuclease]]		*[[Ribonuclease\|Ribonuclease]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	~~<ref group="xtra">PMID:016452444</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Bacillus coli migula 1895]]		[[Category: Bacillus coli migula 1895]]
	[[Category: Ribonuclease Z]]		[[Category: Ribonuclease Z]]

OCA at 08:27, 5 February 2014

OCA — Wed, 05 Feb 2014 08:27:35 GMT

←Older revision		Revision as of 08:27, 5 February 2014
Line 1:		Line 1:
-	[[Image:2cbn.png\|left\|200px]]
-
	{{STRUCTURE_2cbn\| PDB=2cbn \| SCENE= }}		{{STRUCTURE_2cbn\| PDB=2cbn \| SCENE= }}
-		+	===Crystal structure of ZipD from Escherichia coli===
-	===~~CRYSTAL STRUCTURE OF ZIPD FROM ESCHERICHIA COLI~~===	+
-		+
	{{ABSTRACT_PUBMED_16452444}}		{{ABSTRACT_PUBMED_16452444}}

	==About this Structure==		==About this Structure==
-	[[2cbn]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Escherichia_coli Escherichia~~ coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CBN OCA].	+	[[2cbn]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CBN OCA].

	==See Also==		==See Also==
Line 14:		Line 10:

	==Reference==		==Reference==
-	<ref group="xtra">PMID:016452444</ref><references group="xtra"/>	+	<ref group="xtra">PMID:016452444</ref><references group="xtra"/><references/>
-	[[Category: ~~Escherichia~~ coli]]	+	[[Category: Bacillus coli migula 1895]]
	[[Category: Ribonuclease Z]]		[[Category: Ribonuclease Z]]
	[[Category: Kostelecky, B.]]		[[Category: Kostelecky, B.]]

OCA at 14:27, 20 October 2012

OCA — Sat, 20 Oct 2012 14:27:47 GMT

←Older revision		Revision as of 14:27, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2cbn]] is a 1 chain structure ~~of [[Ribonuclease]]~~ with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CBN OCA].	+	[[2cbn]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CBN OCA].

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