1v2d - Revision history

OCA at 23:56, 27 December 2023

2023-12-27T23:56:37Z

←Older revision		Revision as of 23:56, 27 December 2023
Line 3:		Line 3:
	<StructureSection load='1v2d' size='340' side='right'caption='[[1v2d]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='1v2d' size='340' side='right'caption='[[1v2d]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1v2d]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"flavobacterium_thermophilum"_yoshida_and_oshima_1971 "flavobacterium thermophilum" yoshida and oshima 1971~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V2D OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1V2D FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1v2d]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V2D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1V2D FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=PLP:PYRIDOXAL~~-~~5-PHOSPHATE'>PLP</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]] 1.9Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; ~~max-height: 3em;'>[[1v2e\|1v2e]], [[1v2f\|1v2f]]</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>HB8 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~274~~ "~~Flavobacterium thermophilum~~" ~~Yoshida and Oshima 1971])</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=1v2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v2d OCA], [https://pdbe.org/1v2d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1v2d RCSB], [https://www.ebi.ac.uk/pdbsum/1v2d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1v2d ProSAT], [https://www.topsan.org/Proteins/RSGI/1v2d TOPSAN]</span></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[http://en.wikipedia.org/wiki/Glutamine--pyruvate_transaminase Glutamine--pyruvate transaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.6.1.15 2.6.1.15]~~ </~~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=1v2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v2d OCA], [~~http~~://pdbe.org/1v2d PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1v2d RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1v2d PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1v2d ProSAT], [~~http~~://www.topsan.org/Proteins/RSGI/1v2d TOPSAN]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q75WK2_THETH Q75WK2_THETH]
	== 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: Flavobacterium thermophilum yoshida and oshima 1971]]
-	[[Category: Glutamine--pyruvate transaminase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Goto, M~~]]	+	[[Category: Thermus thermophilus]]
-	[[Category: ~~Structural genomic]]~~	+	[[Category: Goto M]]
-	~~[[Category: Plp]]~~	+
-	~~[[Category: Rsgi]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 07:31, 30 December 2020

2020-12-30T07:31:23Z

←Older revision		Revision as of 07:31, 30 December 2020
Line 1:		Line 1:

	==Crystal Structure of T.th HB8 Glutamine Aminotransferase==		==Crystal Structure of T.th HB8 Glutamine Aminotransferase==
-	<StructureSection load='1v2d' size='340' side='right' caption='[[1v2d]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='1v2d' size='340' side='right'caption='[[1v2d]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1v2d]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"flavobacterium_thermophilum"_yoshida_and_oshima_1971 "flavobacterium thermophilum" yoshida and oshima 1971]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V2D OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1V2D FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1v2d]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"flavobacterium_thermophilum"_yoshida_and_oshima_1971 "flavobacterium thermophilum" yoshida and oshima 1971]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V2D OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1V2D FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1v2e\|1v2e]], [[1v2f\|1v2f]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1v2e\|1v2e]], [[1v2f\|1v2f]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HB8 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=274 "Flavobacterium thermophilum" Yoshida and Oshima 1971])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HB8 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=274 "Flavobacterium thermophilum" Yoshida and Oshima 1971])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutamine--pyruvate_transaminase Glutamine--pyruvate transaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.6.1.15 2.6.1.15] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutamine--pyruvate_transaminase Glutamine--pyruvate transaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.6.1.15 2.6.1.15] </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=1v2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v2d OCA], [http://pdbe.org/1v2d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1v2d RCSB], [http://www.ebi.ac.uk/pdbsum/1v2d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1v2d ProSAT], [http://www.topsan.org/Proteins/RSGI/1v2d TOPSAN]</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=1v2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v2d OCA], [http://pdbe.org/1v2d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1v2d RCSB], [http://www.ebi.ac.uk/pdbsum/1v2d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1v2d ProSAT], [http://www.topsan.org/Proteins/RSGI/1v2d TOPSAN]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 31:		Line 31:

	==See Also==		==See Also==
-	*[[Aminotransferase\|Aminotransferase]]	+	*[[Aminotransferase 3D structures\|Aminotransferase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 38:		Line 38:
	[[Category: Flavobacterium thermophilum yoshida and oshima 1971]]		[[Category: Flavobacterium thermophilum yoshida and oshima 1971]]
	[[Category: Glutamine--pyruvate transaminase]]		[[Category: Glutamine--pyruvate transaminase]]
		+	[[Category: Large Structures]]
	[[Category: Goto, M]]		[[Category: Goto, M]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]

OCA at 07:44, 28 March 2018

2018-03-28T07:44:31Z

←Older revision		Revision as of 07:44, 28 March 2018
Line 1:		Line 1:
		+
	==Crystal Structure of T.th HB8 Glutamine Aminotransferase==		==Crystal Structure of T.th HB8 Glutamine Aminotransferase==
	<StructureSection load='1v2d' size='340' side='right' caption='[[1v2d]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='1v2d' size='340' side='right' caption='[[1v2d]], [[Resolution\|resolution]] 1.90Å' scene=''>
Line 7:		Line 8:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HB8 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=274 "Flavobacterium thermophilum" Yoshida and Oshima 1971])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HB8 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=274 "Flavobacterium thermophilum" Yoshida and Oshima 1971])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutamine--pyruvate_transaminase Glutamine--pyruvate transaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.6.1.15 2.6.1.15] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutamine--pyruvate_transaminase Glutamine--pyruvate transaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.6.1.15 2.6.1.15] </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=1v2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v2d OCA], [http://pdbe.org/1v2d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1v2d RCSB], [http://www.ebi.ac.uk/pdbsum/1v2d PDBsum], [http://www.topsan.org/Proteins/RSGI/1v2d 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=1v2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v2d OCA], [http://pdbe.org/1v2d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1v2d RCSB], [http://www.ebi.ac.uk/pdbsum/1v2d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1v2d ProSAT], [http://www.topsan.org/Proteins/RSGI/1v2d TOPSAN]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 13:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/v2/1v2d_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/v2/1v2d_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 16:34, 7 February 2016

2016-02-07T16:34:41Z

←Older revision		Revision as of 16:34, 7 February 2016
Line 17:		Line 17:
	<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=1v2d 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:
	</div>		</div>
	<div class="pdbe-citations 1v2d" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1v2d" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Aminotransferase\|Aminotransferase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 03:17, 10 September 2015

2015-09-10T03:17:25Z

←Older revision		Revision as of 03:17, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1v2d' size='340' side='right' caption='[[1v2d]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='1v2d' size='340' side='right' caption='[[1v2d]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1v2d]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Thermus_thermophilus Thermus thermophilus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V2D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1V2D FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1v2d]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"flavobacterium_thermophilum"_yoshida_and_oshima_1971 "flavobacterium thermophilum" yoshida and oshima 1971]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V2D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1V2D FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1v2e\|1v2e]], [[1v2f\|1v2f]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1v2e\|1v2e]], [[1v2f\|1v2f]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HB8 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=274 ~~Thermus thermophilus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HB8 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=274 "Flavobacterium thermophilum" Yoshida and Oshima 1971])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutamine--pyruvate_transaminase Glutamine--pyruvate transaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.6.1.15 2.6.1.15] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutamine--pyruvate_transaminase Glutamine--pyruvate transaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.6.1.15 2.6.1.15] </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=1v2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v2d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1v2d RCSB], [http://www.ebi.ac.uk/pdbsum/1v2d PDBsum], [http://www.topsan.org/Proteins/RSGI/1v2d 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=1v2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v2d OCA], [http://pdbe.org/1v2d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1v2d RCSB], [http://www.ebi.ac.uk/pdbsum/1v2d PDBsum], [http://www.topsan.org/Proteins/RSGI/1v2d TOPSAN]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 27:		Line 27:
	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 1v2d" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Flavobacterium thermophilum yoshida and oshima 1971]]
	[[Category: Glutamine--pyruvate transaminase]]		[[Category: Glutamine--pyruvate transaminase]]
-	[[Category: Thermus thermophilus]]
	[[Category: Goto, M]]		[[Category: Goto, M]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]

OCA at 13:32, 6 January 2015

2015-01-06T13:32:54Z

←Older revision		Revision as of 13:32, 6 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1v2d]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V2D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1V2D FirstGlance]. <br>		<table><tr><td colspan='2'>[[1v2d]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V2D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1V2D FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1v2e\|1v2e]], [[1v2f\|1v2f]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1v2e\|1v2e]], [[1v2f\|1v2f]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HB8 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=274 Thermus thermophilus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HB8 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=274 Thermus thermophilus])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutamine--pyruvate_transaminase Glutamine--pyruvate transaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.6.1.15 2.6.1.15] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutamine--pyruvate_transaminase Glutamine--pyruvate transaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.6.1.15 2.6.1.15] </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=1v2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v2d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1v2d RCSB], [http://www.ebi.ac.uk/pdbsum/1v2d PDBsum], [http://www.topsan.org/Proteins/RSGI/1v2d 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=1v2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v2d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1v2d RCSB], [http://www.ebi.ac.uk/pdbsum/1v2d PDBsum], [http://www.topsan.org/Proteins/RSGI/1v2d 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 33:		Line 33:
	[[Category: Glutamine--pyruvate transaminase]]		[[Category: Glutamine--pyruvate transaminase]]
	[[Category: Thermus thermophilus]]		[[Category: Thermus thermophilus]]
-	[[Category: Goto, M.]]	+	[[Category: Goto, M]]
-	[[Category: ~~RSGI, RIKEN~~ Structural ~~Genomics/Proteomics Initiative.~~]]	+	[[Category: Structural genomic]]
	[[Category: Plp]]		[[Category: Plp]]
-	[[Category: Riken structural genomics/proteomics initiative]]
	[[Category: Rsgi]]		[[Category: Rsgi]]
-	[[Category: Structural genomic]]
	[[Category: Transferase]]		[[Category: Transferase]]

OCA at 21:50, 29 September 2014

2014-09-29T21:50:04Z

←Older revision		Revision as of 21:50, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1v2d.~~png~~\|~~left~~\|200px]]	+	==Crystal Structure of T.th HB8 Glutamine Aminotransferase==
		+	<StructureSection load='1v2d' size='340' side='right' caption='[[1v2d]], [[Resolution\|resolution]] 1.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1v2d]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V2D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1V2D FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1v2e\|1v2e]], [[1v2f\|1v2f]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HB8 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=274 Thermus thermophilus])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutamine--pyruvate_transaminase Glutamine--pyruvate transaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.6.1.15 2.6.1.15] </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=1v2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v2d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1v2d RCSB], [http://www.ebi.ac.uk/pdbsum/1v2d PDBsum], [http://www.topsan.org/Proteins/RSGI/1v2d 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/v2/1v2d_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 following three-dimensional structures of three forms of glutamine:phenylpyruvate aminotransferase from Thermus thermophilus HB8 have been determined and represent the first x-ray analysis of the enzyme: the unliganded pyridoxal 5'-phosphate form at 1.9 A resolution and two complexes with 3-phenylpropionate and alpha-keto-gamma-methylthiobutyrate at 2.35 and 2.6 A resolution, respectively. The enzyme shows high activity toward phenylalanine, tyrosine, tryptophan, kynurenine, methionine, and glutamine. The enzyme is a homodimer, and each subunit is divided into an N-terminal arm and small and large domains. Based on its folding, the enzyme belongs to fold type I, aminotransferase subclass Ib. The subclass I aminotransferases whose structures have so far been determined exhibit a large movement of the small domain region upon binding of a substrate. Similarly, the glutamine:phenylpyruvate aminotransferase undergoes a large movement in part of the small domain to close the active site. The active-site pocket has a shape and size suitable to enclose the side chain of an aromatic amino acid or that of methionine. The inner side of the pocket is mostly hydrophobic, but also has polar sites. The kynurenine complex generated by computer modeling fits the pocket of the enzyme and its hydrophilic groups interact with the polar sites of the pocket.

-	~~{{STRUCTURE_1v2d\| PDB=1v2d \| SCENE= }}~~	+	Crystal structures of glutamine:phenylpyruvate aminotransferase from Thermus thermophilus HB8: induced fit and substrate recognition.,Goto M, Omi R, Miyahara I, Hosono A, Mizuguchi H, Hayashi H, Kagamiyama H, Hirotsu K J Biol Chem. 2004 Apr 16;279(16):16518-25. Epub 2004 Feb 3. PMID:14761974<ref>PMID:14761974</ref>

-	~~===Crystal Structure~~ of T.~~th HB8 Glutamine Aminotransferase===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_14761974}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1v2d]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org~~/~~wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V2D OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:014761974<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Glutamine--pyruvate transaminase]]		[[Category: Glutamine--pyruvate transaminase]]
	[[Category: Thermus thermophilus]]		[[Category: Thermus thermophilus]]

OCA: Protected "1v2d" [edit=sysop:move=sysop]

2013-01-05T13:21:31Z

Protected "1v2d" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:21, 5 January 2013

OCA at 13:21, 5 January 2013

2013-01-05T13:21:28Z

←Older revision		Revision as of 13:21, 5 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1v2d.png\|left\|200px]]		[[Image:1v2d.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1v2d", 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_1v2d\| PDB=1v2d \| SCENE= }}		{{STRUCTURE_1v2d\| PDB=1v2d \| SCENE= }}

	===Crystal Structure of T.th HB8 Glutamine Aminotransferase===		===Crystal Structure of T.th HB8 Glutamine Aminotransferase===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_14761974}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 14761974 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_14761974}}		{{ABSTRACT_PUBMED_14761974}}

	==About this Structure==		==About this Structure==
-	~~1V2D~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V2D OCA].	+	[[1v2d]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V2D OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~14761974~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:014761974</ref><references group="xtra"/>
	[[Category: Glutamine--pyruvate transaminase]]		[[Category: Glutamine--pyruvate transaminase]]
	[[Category: Thermus thermophilus]]		[[Category: Thermus thermophilus]]
Line 33:		Line 21:
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
	[[Category: Transferase]]		[[Category: Transferase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 15:09:08 2009''

OCA at 13:09, 16 February 2009

2009-02-16T13:09:09Z

←Older revision		Revision as of 13:09, 16 February 2009
Line 23:		Line 23:

	==Reference==		==Reference==
-	Crystal structures of glutamine:phenylpyruvate aminotransferase from Thermus thermophilus HB8: induced fit and substrate recognition., Goto M, Omi R, Miyahara I, Hosono A, Mizuguchi H, Hayashi H, Kagamiyama H, Hirotsu K, J Biol Chem. 2004 Apr 16;279(16):16518-25. Epub 2004 Feb 3. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/14761974 14761974]~~	+	<ref group="xtra">PMID:14761974</ref><references group="xtra"/>
	[[Category: Glutamine--pyruvate transaminase]]		[[Category: Glutamine--pyruvate transaminase]]
	[[Category: Thermus thermophilus]]		[[Category: Thermus thermophilus]]
Line 34:		Line 34:
	[[Category: Transferase]]		[[Category: Transferase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun Nov~~ 16 18:07:~~34 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 15:09:08 2009''