3t9g - Revision history

OCA at 13:21, 14 March 2024

OCA — Thu, 14 Mar 2024 13:21:37 GMT

←Older revision		Revision as of 13:21, 14 March 2024
Line 3:		Line 3:
	<StructureSection load='3t9g' size='340' side='right'caption='[[3t9g]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='3t9g' size='340' side='right'caption='[[3t9g]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3t9g]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"anaerocellum_thermophilum"_svetlichnyi_et_al._1990 "anaerocellum thermophilum" svetlichnyi et al. 1990~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3T9G OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3T9G FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3t9g]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Caldicellulosiruptor_bescii Caldicellulosiruptor bescii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3T9G OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3T9G FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene~~></td></tr>~~	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.5Å</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Athe_1854, Cbes_1854 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=31899 "Anaerocellum thermophilum" Svetlichnyi et al. 1990])</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Pectate_lyase Pectate lyase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.2.2 4.2.2.2] </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=3t9g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3t9g OCA], [https://pdbe.org/3t9g PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3t9g RCSB], [https://www.ebi.ac.uk/pdbsum/3t9g PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3t9g 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=3t9g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3t9g OCA], [https://pdbe.org/3t9g PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3t9g RCSB], [https://www.ebi.ac.uk/pdbsum/3t9g PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3t9g ProSAT]</span></td></tr>
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/B9MKT4_CALBD B9MKT4_CALBD]
-	A 1.5 A resolution X-ray structure of the catalytic module of Caldicellulosiruptor bescii family 3 pectate lyase is reported (PDB entry 3t9g). The resulting structure was refined to an R factor of 0.143 and an R(free) of 0.178. Structural analysis shows that this new structure is very similar to the previously solved structure of a family 3 pectate lyase from Bacillus sp. strain KSM-P15 (PDB entry 1ee6), with a root-mean-square deviation of 0.93 A and a sequence identity of 53%. This structural similarity is significant considering that C. bescii is a hyperthermophile and Bacillus sp. is a mesophile.	+
-		+
-	A 1.5 A resolution X-ray structure of the catalytic module of Caldicellulosiruptor bescii family 3 pectate lyase.,Alahuhta M, Chandrayan P, Kataeva I, Adams MW, Himmel ME, Lunin VV Acta Crystallogr Sect F Struct Biol Cryst Commun. 2011 Dec 1;67(Pt 12):~~1498-500. , Epub 2011 Nov 25. PMID:22139151<ref>PMID:22139151<~~/~~ref>~~	+
-		+
-	~~From MEDLINE®~~/~~PubMed®, a database of the U~~.S. ~~National Library of Medicine.<br>~~	+
-	</~~div>~~	+
-	~~<div class="pdbe-citations 3t9g" style="background-color:#fffaf0;"></div>~~	+
-	~~== References ==~~	+
-	~~<references~~/>	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Anaerocellum thermophilum svetlichnyi et al. 1990~~]]	+	[[Category: Caldicellulosiruptor bescii]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Pectate lyase]]~~	+	[[Category: Alahuhta PM]]
-	[[Category: Alahuhta~~, P M~~]]	+	[[Category: Lunin VV]]
-	[[Category: Lunin~~, V V]]~~	+
-	~~[[Category: Lyase]]~~	+
-	~~[[Category: Parallel beta-helix]]~~	+
-	~~[[Category: Pl3~~]]	+

OCA at 16:48, 6 July 2022

OCA — Wed, 06 Jul 2022 16:48:40 GMT

←Older revision		Revision as of 16:48, 6 July 2022
Line 1:		Line 1:

	==The crystal structure of family 3 pectate lyase from Caldicellulosiruptor bescii==		==The crystal structure of family 3 pectate lyase from Caldicellulosiruptor bescii==
-	<StructureSection load='3t9g' size='340' side='right' caption='[[3t9g]], [[Resolution\|resolution]] 1.50Å' scene=''>	+	<StructureSection load='3t9g' size='340' side='right'caption='[[3t9g]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3t9g]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"anaerocellum_thermophilum"~~_svetlichnyi_va_et_al~~._1990 "anaerocellum thermophilum" svetlichnyi va et al. 1990]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3T9G OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3T9G FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3t9g]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/"anaerocellum_thermophilum"_svetlichnyi_et_al._1990 "anaerocellum thermophilum" svetlichnyi et al. 1990]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3T9G OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3T9G FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Athe_1854, Cbes_1854 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=31899 "Anaerocellum thermophilum" Svetlichnyi VA et al. 1990])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Athe_1854, Cbes_1854 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=31899 "Anaerocellum thermophilum" Svetlichnyi et al. 1990])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Pectate_lyase Pectate lyase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.2.2 4.2.2.2] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Pectate_lyase Pectate lyase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.2.2 4.2.2.2] </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=3t9g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3t9g OCA], [~~http~~://pdbe.org/3t9g PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3t9g RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3t9g PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3t9g 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=3t9g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3t9g OCA], [https://pdbe.org/3t9g PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3t9g RCSB], [https://www.ebi.ac.uk/pdbsum/3t9g PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3t9g ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 22:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Anaerocellum thermophilum svetlichnyi va et al. 1990]]	+	[[Category: Anaerocellum thermophilum svetlichnyi et al. 1990]]
		+	[[Category: Large Structures]]
	[[Category: Pectate lyase]]		[[Category: Pectate lyase]]
	[[Category: Alahuhta, P M]]		[[Category: Alahuhta, P M]]

OCA at 21:14, 11 August 2016

OCA — Thu, 11 Aug 2016 21:14:32 GMT

←Older revision		Revision as of 21:14, 11 August 2016
Line 1:		Line 1:
		+
	==The crystal structure of family 3 pectate lyase from Caldicellulosiruptor bescii==		==The crystal structure of family 3 pectate lyase from Caldicellulosiruptor bescii==
	<StructureSection load='3t9g' size='340' side='right' caption='[[3t9g]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='3t9g' size='340' side='right' caption='[[3t9g]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3t9g]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Caldicellulosiruptor_bescii Caldicellulosiruptor bescii~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3T9G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3T9G FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3t9g]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"anaerocellum_thermophilum"_svetlichnyi_va_et_al._1990 "anaerocellum thermophilum" svetlichnyi va et al. 1990]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3T9G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3T9G FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Athe_1854, Cbes_1854 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=31899 ~~Caldicellulosiruptor bescii~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Athe_1854, Cbes_1854 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=31899 "Anaerocellum thermophilum" Svetlichnyi VA et al. 1990])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pectate_lyase Pectate lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.2.2 4.2.2.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pectate_lyase Pectate lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.2.2 4.2.2.2] </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=3t9g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3t9g OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3t9g RCSB], [http://www.ebi.ac.uk/pdbsum/3t9g 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=3t9g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3t9g OCA], [http://pdbe.org/3t9g PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3t9g RCSB], [http://www.ebi.ac.uk/pdbsum/3t9g PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3t9g ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 16:		Line 17:
	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 3t9g" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Caldicellulosiruptor bescii~~]]	+	[[Category: Anaerocellum thermophilum svetlichnyi va et al. 1990]]
	[[Category: Pectate lyase]]		[[Category: Pectate lyase]]
	[[Category: Alahuhta, P M]]		[[Category: Alahuhta, P M]]

OCA at 10:58, 4 January 2015

OCA — Sun, 04 Jan 2015 10:58:28 GMT

←Older revision		Revision as of 10:58, 4 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3t9g]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Caldicellulosiruptor_bescii Caldicellulosiruptor bescii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3T9G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3T9G FirstGlance]. <br>		<table><tr><td colspan='2'>[[3t9g]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Caldicellulosiruptor_bescii Caldicellulosiruptor bescii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3T9G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3T9G FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Athe_1854, Cbes_1854 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=31899 Caldicellulosiruptor bescii])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Athe_1854, Cbes_1854 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=31899 Caldicellulosiruptor bescii])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pectate_lyase Pectate lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.2.2 4.2.2.2] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pectate_lyase Pectate lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.2.2 4.2.2.2] </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=3t9g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3t9g OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3t9g RCSB], [http://www.ebi.ac.uk/pdbsum/3t9g 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=3t9g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3t9g OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3t9g RCSB], [http://www.ebi.ac.uk/pdbsum/3t9g PDBsum]</span></td></tr>
-	<table>	+	</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 14:		Line 14:
	A 1.5 A resolution X-ray structure of the catalytic module of Caldicellulosiruptor bescii family 3 pectate lyase.,Alahuhta M, Chandrayan P, Kataeva I, Adams MW, Himmel ME, Lunin VV Acta Crystallogr Sect F Struct Biol Cryst Commun. 2011 Dec 1;67(Pt 12):1498-500. , Epub 2011 Nov 25. PMID:22139151<ref>PMID:22139151</ref>		A 1.5 A resolution X-ray structure of the catalytic module of Caldicellulosiruptor bescii family 3 pectate lyase.,Alahuhta M, Chandrayan P, Kataeva I, Adams MW, Himmel ME, Lunin VV Acta Crystallogr Sect F Struct Biol Cryst Commun. 2011 Dec 1;67(Pt 12):1498-500. , Epub 2011 Nov 25. PMID:22139151<ref>PMID:22139151</ref>

-	From ~~MEDLINEÂ®~~/~~PubMedÂ®~~, 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>
	== References ==		== References ==
Line 22:		Line 22:
	[[Category: Caldicellulosiruptor bescii]]		[[Category: Caldicellulosiruptor bescii]]
	[[Category: Pectate lyase]]		[[Category: Pectate lyase]]
-	[[Category: Alahuhta, P M.]]	+	[[Category: Alahuhta, P M]]
-	[[Category: Lunin, V V.]]	+	[[Category: Lunin, V V]]
	[[Category: Lyase]]		[[Category: Lyase]]
	[[Category: Parallel beta-helix]]		[[Category: Parallel beta-helix]]
-	[[Category: Pectate lyase]]
	[[Category: Pl3]]		[[Category: Pl3]]

OCA at 06:37, 5 June 2014

OCA — Thu, 05 Jun 2014 06:37:47 GMT

←Older revision		Revision as of 06:37, 5 June 2014
Line 1:		Line 1:
-	[[~~Image:~~3t9g.~~jpg~~\|~~left~~\|~~200px~~]]	+	==The crystal structure of family 3 pectate lyase from Caldicellulosiruptor bescii==
		+	<StructureSection load='3t9g' size='340' side='right' caption='[[3t9g]], [[Resolution\|resolution]] 1.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3t9g]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Caldicellulosiruptor_bescii Caldicellulosiruptor bescii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3T9G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3T9G FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Athe_1854, Cbes_1854 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=31899 Caldicellulosiruptor bescii])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pectate_lyase Pectate lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.2.2 4.2.2.2] </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=3t9g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3t9g OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3t9g RCSB], [http://www.ebi.ac.uk/pdbsum/3t9g PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	A 1.5 A resolution X-ray structure of the catalytic module of Caldicellulosiruptor bescii family 3 pectate lyase is reported (PDB entry 3t9g). The resulting structure was refined to an R factor of 0.143 and an R(free) of 0.178. Structural analysis shows that this new structure is very similar to the previously solved structure of a family 3 pectate lyase from Bacillus sp. strain KSM-P15 (PDB entry 1ee6), with a root-mean-square deviation of 0.93 A and a sequence identity of 53%. This structural similarity is significant considering that C. bescii is a hyperthermophile and Bacillus sp. is a mesophile.

-	<!--	+	A 1.5 A resolution X-ray structure of the catalytic module of Caldicellulosiruptor bescii family 3 pectate lyase.,Alahuhta M, Chandrayan P, Kataeva I, Adams MW, Himmel ME, Lunin VV Acta Crystallogr Sect F Struct Biol Cryst Commun. 2011 Dec 1;67(Pt 12):1498-500. , Epub 2011 Nov 25. PMID:22139151<ref>PMID:22139151</ref>
-	~~The line below this paragraph~~, ~~containing "STRUCTURE_3t9g"~~, ~~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_3t9g\| PDB=3t9g \| SCENE= }}~~	+

-	~~===The crystal structure~~ of ~~family 3 pectate lyase from Caldicellulosiruptor bescii===~~	+	From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-		+	== References ==
-	~~<!--~~	+	<references/>
-	~~The line below this paragraph, {{ABSTRACT_PUBMED_22139151}}, adds~~ the ~~Publication Abstract to the page~~	+	__TOC__
-	~~(as it appears on PubMed at http://www~~.~~pubmed~~.~~gov), where 22139151 is the PubMed ID number~~.	+	</StructureSection>
-	-->	+
-	~~{{ABSTRACT_PUBMED_22139151}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3t9g]] is a 2 chain structure with sequence from [http:~~/~~/en.wikipedia.org/wiki/Caldicellulosiruptor_bescii Caldicellulosiruptor bescii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3T9G OCA].~~	+
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:022139151<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Caldicellulosiruptor bescii]]		[[Category: Caldicellulosiruptor bescii]]
	[[Category: Pectate lyase]]		[[Category: Pectate lyase]]

OCA at 09:09, 9 May 2012

OCA — Wed, 09 May 2012 09:09:47 GMT

←Older revision		Revision as of 09:09, 9 May 2012
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3t9g.jpg\|left\|200px]]

-	The ~~entry 3t9g~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3t9g", 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_3t9g\| PDB=3t9g \| SCENE= }}

-	~~Authors: Alahuhta, P.M., Lunin, V.V.~~	+	===The crystal structure of family 3 pectate lyase from Caldicellulosiruptor bescii===

-	~~Description:~~ The ~~crystal~~ structure ~~of family 3 pectate lyase~~ from Caldicellulosiruptor bescii	+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_22139151}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 22139151 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_22139151}}
		+
		+	==About this Structure==
		+	[[3t9g]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Caldicellulosiruptor_bescii Caldicellulosiruptor bescii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3T9G OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:022139151</ref><references group="xtra"/>
		+	[[Category: Caldicellulosiruptor bescii]]
		+	[[Category: Pectate lyase]]
		+	[[Category: Alahuhta, P M.]]
		+	[[Category: Lunin, V V.]]
		+	[[Category: Lyase]]
		+	[[Category: Parallel beta-helix]]
		+	[[Category: Pectate lyase]]
		+	[[Category: Pl3]]

OCA at 07:09, 24 August 2011

OCA — Wed, 24 Aug 2011 07:09:26 GMT

←Older revision		Revision as of 07:09, 24 August 2011
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3t9g is ON HOLD	+	The entry 3t9g is ON HOLD until Paper Publication

	Authors: Alahuhta, P.M., Lunin, V.V.		Authors: Alahuhta, P.M., Lunin, V.V.

	Description: The crystal structure of family 3 pectate lyase from Caldicellulosiruptor bescii		Description: The crystal structure of family 3 pectate lyase from Caldicellulosiruptor bescii

OCA: Protected "3t9g" [edit=sysop:move=sysop]

OCA — Wed, 10 Aug 2011 05:38:08 GMT

Protected "3t9g" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:38, 10 August 2011

OCA: New page: '''Unreleased structure''' The entry 3t9g is ON HOLD Authors: Alahuhta, P.M., Lunin, V.V. Description: The crystal structure of family 3 pectate lyase from Caldicellulosiruptor bescii

OCA — Wed, 10 Aug 2011 05:38:07 GMT

New page: '''Unreleased structure''' The entry 3t9g is ON HOLD Authors: Alahuhta, P.M., Lunin, V.V. Description: The crystal structure of family 3 pectate lyase from Caldicellulosiruptor bescii

New page

'''Unreleased structure'''

The entry 3t9g is ON HOLD

Authors: Alahuhta, P.M., Lunin, V.V.

Description: The crystal structure of family 3 pectate lyase from Caldicellulosiruptor bescii