2z3g - Revision history

OCA at 13:20, 1 November 2023

OCA — Wed, 01 Nov 2023 13:20:36 GMT

←Older revision		Revision as of 13:20, 1 November 2023
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	<StructureSection load='2z3g' size='340' side='right'caption='[[2z3g]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='2z3g' size='340' side='right'caption='[[2z3g]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2z3g]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Aspte Aspte~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z3G OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2Z3G FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2z3g]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Aspergillus_terreus Aspergillus terreus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z3G OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2Z3G FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=GLC:ALPHA~~-~~D-GLUCOSE'>GLC</scene>~~, ~~<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]] 1.5Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[2z3h\|2z3h]], [[2z3i\|2z3i]], [[2z3j\|2z3j]]~~<~~/td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=PRD_900006:trehalose'>PRD_900006</scene>, <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/Blasticidin-S_deaminase Blasticidin-S deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.23 3.5.4.23]~~ </~~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=2z3g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z3g OCA], [https://pdbe.org/2z3g PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2z3g RCSB], [https://www.ebi.ac.uk/pdbsum/2z3g PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2z3g 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=2z3g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z3g OCA], [~~http~~://pdbe.org/2z3g PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2z3g RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2z3g PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2z3g ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/BSD_ASPTE BSD_ASPTE]] Catalyzes the deamination of the cytosine moiety of the antibiotics blasticidin S, cytomycin and acetylblasticidin S.	+	[https://www.uniprot.org/uniprot/BSD_ASPTE BSD_ASPTE] Catalyzes the deamination of the cytosine moiety of the antibiotics blasticidin S, cytomycin and acetylblasticidin S.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 37:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Aspte]]~~	+	[[Category: Aspergillus terreus]]
-	~~[[Category: Blasticidin-S deaminase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Furuichi, M]]	+	[[Category: Furuichi M]]
-	[[Category: Kimura, M]]	+	[[Category: Kimura M]]
-	[[Category: Kumasaka, T]]	+	[[Category: Kumasaka T]]
-	[[Category: Nakasako, M]]	+	[[Category: Nakasako M]]
-	[[Category: Ueki, T]]	+	[[Category: Ueki T]]
-	[[Category: Yamaguchi, I]]	+	[[Category: Yamaguchi I]]
-	[[Category: Yamamoto, M]]	+	[[Category: Yamamoto M]]
-	~~[[Category: Cytidine deaminase family]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Tetramer]]~~	+
-	~~[[Category: Zinc~~]]	+

OCA at 11:57, 29 July 2020

OCA — Wed, 29 Jul 2020 11:57:02 GMT

←Older revision		Revision as of 11:57, 29 July 2020
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	==Crystal structure of blasticidin S deaminase (BSD)==		==Crystal structure of blasticidin S deaminase (BSD)==
-	<StructureSection load='2z3g' size='340' side='right' caption='[[2z3g]], [[Resolution\|resolution]] 1.50Å' scene=''>	+	<StructureSection load='2z3g' size='340' side='right'caption='[[2z3g]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2z3g]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Aspte Aspte]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z3G OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2Z3G FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2z3g]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Aspte Aspte]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z3G OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2Z3G FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~TRE~~:~~TREHALOSE~~'>~~TRE~~</scene>, <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=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2z3h\|2z3h]], [[2z3i\|2z3i]], [[2z3j\|2z3j]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2z3h\|2z3h]], [[2z3i\|2z3i]], [[2z3j\|2z3j]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Blasticidin-S_deaminase Blasticidin-S deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.23 3.5.4.23] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Blasticidin-S_deaminase Blasticidin-S deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.23 3.5.4.23] </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=2z3g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z3g OCA], [http://pdbe.org/2z3g PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2z3g RCSB], [http://www.ebi.ac.uk/pdbsum/2z3g PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2z3g 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=2z3g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z3g OCA], [http://pdbe.org/2z3g PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2z3g RCSB], [http://www.ebi.ac.uk/pdbsum/2z3g PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2z3g ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 32:		Line 32:

	==See Also==		==See Also==
-	*[[Deaminase\|Deaminase]]	+	*[[Deaminase 3D structures\|Deaminase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 39:		Line 39:
	[[Category: Aspte]]		[[Category: Aspte]]
	[[Category: Blasticidin-S deaminase]]		[[Category: Blasticidin-S deaminase]]
		+	[[Category: Large Structures]]
	[[Category: Furuichi, M]]		[[Category: Furuichi, M]]
	[[Category: Kimura, M]]		[[Category: Kimura, M]]

OCA at 09:11, 17 October 2018

OCA — Wed, 17 Oct 2018 09:11:13 GMT

←Older revision		Revision as of 09:11, 17 October 2018
Line 1:		Line 1:
		+
	==Crystal structure of blasticidin S deaminase (BSD)==		==Crystal structure of blasticidin S deaminase (BSD)==
	<StructureSection load='2z3g' size='340' side='right' caption='[[2z3g]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='2z3g' size='340' side='right' caption='[[2z3g]], [[Resolution\|resolution]] 1.50Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2z3h\|2z3h]], [[2z3i\|2z3i]], [[2z3j\|2z3j]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2z3h\|2z3h]], [[2z3i\|2z3i]], [[2z3j\|2z3j]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Blasticidin-S_deaminase Blasticidin-S deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.23 3.5.4.23] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Blasticidin-S_deaminase Blasticidin-S deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.23 3.5.4.23] </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=2z3g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z3g OCA], [http://pdbe.org/2z3g PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2z3g RCSB], [http://www.ebi.ac.uk/pdbsum/2z3g 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=2z3g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z3g OCA], [http://pdbe.org/2z3g PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2z3g RCSB], [http://www.ebi.ac.uk/pdbsum/2z3g PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2z3g ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 14:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/z3/2z3g_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/z3/2z3g_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 48:		Line 49:
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Tetramer]]		[[Category: Tetramer]]
		+	[[Category: Zinc]]

OCA at 16:56, 7 February 2016

OCA — Sun, 07 Feb 2016 16:56:57 GMT

←Older revision		Revision as of 16:56, 7 February 2016
Line 2:		Line 2:
	<StructureSection load='2z3g' size='340' side='right' caption='[[2z3g]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='2z3g' size='340' side='right' caption='[[2z3g]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2z3g]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Aspergillus_terreus Aspergillus terreus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z3G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2Z3G FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2z3g]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Aspte Aspte]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z3G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2Z3G FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TRE:TREHALOSE'>TRE</scene>, <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=TRE:TREHALOSE'>TRE</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2z3h\|2z3h]], [[2z3i\|2z3i]], [[2z3j\|2z3j]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2z3h\|2z3h]], [[2z3i\|2z3i]], [[2z3j\|2z3j]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Blasticidin-S_deaminase Blasticidin-S deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.23 3.5.4.23] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Blasticidin-S_deaminase Blasticidin-S deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.23 3.5.4.23] </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=2z3g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z3g OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2z3g RCSB], [http://www.ebi.ac.uk/pdbsum/2z3g 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=2z3g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z3g OCA], [http://pdbe.org/2z3g PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2z3g RCSB], [http://www.ebi.ac.uk/pdbsum/2z3g PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 18:
	<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=2z3g ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 28:		Line 28:
	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 2z3g" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 35:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Aspergillus terreus~~]]	+	[[Category: Aspte]]
	[[Category: Blasticidin-S deaminase]]		[[Category: Blasticidin-S deaminase]]
	[[Category: Furuichi, M]]		[[Category: Furuichi, M]]

OCA at 16:51, 24 December 2014

OCA — Wed, 24 Dec 2014 16:51:55 GMT

←Older revision		Revision as of 16:51, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2z3g]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Aspergillus_terreus Aspergillus terreus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z3G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2Z3G FirstGlance]. <br>		<table><tr><td colspan='2'>[[2z3g]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Aspergillus_terreus Aspergillus terreus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z3G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2Z3G FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TRE:TREHALOSE'>TRE</scene>, <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=TRE:TREHALOSE'>TRE</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2z3h\|2z3h]], [[2z3i\|2z3i]], [[2z3j\|2z3j]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2z3h\|2z3h]], [[2z3i\|2z3i]], [[2z3j\|2z3j]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Blasticidin-S_deaminase Blasticidin-S deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.23 3.5.4.23] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Blasticidin-S_deaminase Blasticidin-S deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.23 3.5.4.23] </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=2z3g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z3g OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2z3g RCSB], [http://www.ebi.ac.uk/pdbsum/2z3g 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=2z3g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z3g OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2z3g RCSB], [http://www.ebi.ac.uk/pdbsum/2z3g PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/BSD_ASPTE BSD_ASPTE]] Catalyzes the deamination of the cytosine moiety of the antibiotics blasticidin S, cytomycin and acetylblasticidin S.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 37:
	[[Category: Aspergillus terreus]]		[[Category: Aspergillus terreus]]
	[[Category: Blasticidin-S deaminase]]		[[Category: Blasticidin-S deaminase]]
-	[[Category: Furuichi, M.]]	+	[[Category: Furuichi, M]]
-	[[Category: Kimura, M.]]	+	[[Category: Kimura, M]]
-	[[Category: Kumasaka, T.]]	+	[[Category: Kumasaka, T]]
-	[[Category: Nakasako, M.]]	+	[[Category: Nakasako, M]]
-	[[Category: Ueki, T.]]	+	[[Category: Ueki, T]]
-	[[Category: Yamaguchi, I.]]	+	[[Category: Yamaguchi, I]]
-	[[Category: Yamamoto, M.]]	+	[[Category: Yamamoto, M]]
	[[Category: Cytidine deaminase family]]		[[Category: Cytidine deaminase family]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Tetramer]]		[[Category: Tetramer]]

OCA at 05:28, 2 October 2014

OCA — Thu, 02 Oct 2014 05:28:36 GMT

←Older revision		Revision as of 05:28, 2 October 2014
Line 1:		Line 1:
-	[[~~Image:~~2z3g.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of blasticidin S deaminase (BSD)==
		+	<StructureSection load='2z3g' size='340' side='right' caption='[[2z3g]], [[Resolution\|resolution]] 1.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2z3g]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Aspergillus_terreus Aspergillus terreus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z3G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2Z3G FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TRE:TREHALOSE'>TRE</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2z3h\|2z3h]], [[2z3i\|2z3i]], [[2z3j\|2z3j]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Blasticidin-S_deaminase Blasticidin-S deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.23 3.5.4.23] </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=2z3g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z3g OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2z3g RCSB], [http://www.ebi.ac.uk/pdbsum/2z3g 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/z3/2z3g_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 set of blasticidin S (BS) and blasticidin S deaminase (BSD) is a widely used selectable marker for gene transfer experiments. BSD is a member of the cytidine deaminase (CDA) family; it is a zinc-dependent enzyme with three cysteines and one water molecule as zinc ligands. The crystal structures of BSD were determined in six states (i.e. native, substrate-bound, product-bound, cacodylate-bound, substrate-bound E56Q mutant, and R90K mutant). In the structures, the zinc position and coordination structures vary. The substrate-bound structure shows a large positional and geometrical shift of zinc with a double-headed electron density of the substrate that seems to be assigned to the amino and hydroxyl groups of the substrate and product, respectively. In this intermediate-like structure, the steric hindrance of the hydroxyl group pushes the zinc into the triangular plane consisting of three cysteines with a positional shift of approximately 0.6 A, and the fifth ligand water approaches the opposite direction of the substrate with a shift of 0.4 A. Accordingly, the zinc coordination is changed from tetrahedral to trigonal bipyramidal, and its coordination distance is extended between zinc and its intermediate. The shift of zinc and the recruited water is also observed in the structure of the inactivated E56Q mutant. This novel observation is different in two-cysteine cytidine deaminase Escherichia coli CDA and might be essential for the reaction mechanism in BSD, since it is useful for the easy release of the product by charge compensation and for the structural change of the substrate.

-	~~{{STRUCTURE_2z3g\| PDB=2z3g \| SCENE= }}~~	+	Crystal structures of blasticidin S deaminase (BSD): implications for dynamic properties of catalytic zinc.,Kumasaka T, Yamamoto M, Furuichi M, Nakasako M, Teh AH, Kimura M, Yamaguchi I, Ueki T J Biol Chem. 2007 Dec 21;282(51):37103-11. Epub 2007 Oct 23. PMID:17959604<ref>PMID:17959604</ref>

-	~~===Crystal structure~~ of ~~blasticidin~~ S ~~deaminase (BSD)===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_17959604}}~~	+	==See Also==
-		+	*[[Deaminase\|Deaminase]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~2z3g~~]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Aspergillus_terreus Aspergillus terreus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z3G OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:017959604<~~/~~ref~~><~~ref group="xtra">PMID:010089374</ref><references group="xtra"~~/>	+
	[[Category: Aspergillus terreus]]		[[Category: Aspergillus terreus]]
	[[Category: Blasticidin-S deaminase]]		[[Category: Blasticidin-S deaminase]]

OCA at 13:46, 6 February 2013

OCA — Wed, 06 Feb 2013 13:46:22 GMT

←Older revision		Revision as of 13:46, 6 February 2013
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	[[Image:2z3g.png\|left\|200px]]		[[Image:2z3g.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2z3g", 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_2z3g\| PDB=2z3g \| SCENE= }}		{{STRUCTURE_2z3g\| PDB=2z3g \| SCENE= }}

	===Crystal structure of blasticidin S deaminase (BSD)===		===Crystal structure of blasticidin S deaminase (BSD)===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_17959604}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 17959604 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_17959604}}		{{ABSTRACT_PUBMED_17959604}}

Line 22:		Line 11:

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~17959604~~</ref><ref group="xtra">PMID:~~10089374~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:017959604</ref><ref group="xtra">PMID:010089374</ref><references group="xtra"/>
	[[Category: Aspergillus terreus]]		[[Category: Aspergillus terreus]]
	[[Category: Blasticidin-S deaminase]]		[[Category: Blasticidin-S deaminase]]
Line 35:		Line 24:
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Tetramer]]		[[Category: Tetramer]]
-	[[Category: Zinc]]

OCA: Protected "2z3g" [edit=sysop:move=sysop]

OCA — Mon, 14 Mar 2011 23:50:42 GMT

Protected "2z3g" [edit=sysop:move=sysop]

←Older revision

Revision as of 23:50, 14 March 2011

OCA at 23:50, 14 March 2011

OCA — Mon, 14 Mar 2011 23:50:41 GMT

←Older revision		Revision as of 23:50, 14 March 2011
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-	{{Seed}}
	[[Image:2z3g.png\|left\|200px]]		[[Image:2z3g.png\|left\|200px]]

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	==About this Structure==		==About this Structure==
-	~~2Z3G~~ is a 4 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Aspergillus_terreus Aspergillus terreus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z3G OCA].	+	[[2z3g]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Aspergillus_terreus Aspergillus terreus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z3G OCA].

	==Reference==		==Reference==
Line 37:		Line 36:
	[[Category: Tetramer]]		[[Category: Tetramer]]
	[[Category: Zinc]]		[[Category: Zinc]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 15:16:18 2009''

OCA at 13:16, 16 February 2009

OCA — Mon, 16 Feb 2009 13:16:19 GMT

←Older revision		Revision as of 13:16, 16 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	2Z3G is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Aspergillus_terreus Aspergillus terreus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z3G OCA].	+	2Z3G is a 4 chains structure of sequences from [http://en.wikipedia.org/wiki/Aspergillus_terreus Aspergillus terreus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z3G OCA].

	==Reference==		==Reference==
-	Crystal structures of blasticidin S deaminase (BSD): implications for dynamic properties of catalytic zinc., Kumasaka T, Yamamoto M, Furuichi M, Nakasako M, Teh AH, Kimura M, Yamaguchi I, Ueki T, J Biol Chem. 2007 Dec 21;282(51):37103-11. Epub 2007 Oct 23. PMID:~~[http:~~/~~/www.ncbi.nlm.nih.gov/pubmed/17959604 17959604]~~	+	<ref group="xtra">PMID:17959604</ref><ref group="xtra">PMID:10089374</ref><references group="xtra"/>
-		+
-	Crystallization and preliminary X-ray diffraction studies of blasticidin S deaminase from Aspergillus terreus., Nakasako M, Kimura M, Yamaguchi I, Acta Crystallogr D Biol Crystallogr. 1999 Feb;55(Pt 2):547-8. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/10089374 10089374]~~	+
	[[Category: Aspergillus terreus]]		[[Category: Aspergillus terreus]]
	[[Category: Blasticidin-S deaminase]]		[[Category: Blasticidin-S deaminase]]
-	[[Category: Single protein]]
	[[Category: Furuichi, M.]]		[[Category: Furuichi, M.]]
	[[Category: Kimura, M.]]		[[Category: Kimura, M.]]
Line 41:		Line 38:
	[[Category: Zinc]]		[[Category: Zinc]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun Jul 27 18~~:06:~~57 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 15:16:18 2009''