2qaa - Revision history

OCA at 07:48, 9 March 2022

2022-03-09T07:48:58Z

←Older revision		Revision as of 07:48, 9 March 2022
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	<StructureSection load='2qaa' size='340' side='right'caption='[[2qaa]], [[Resolution\|resolution]] 1.23Å' scene=''>		<StructureSection load='2qaa' size='340' side='right'caption='[[2qaa]], [[Resolution\|resolution]] 1.23Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2qaa]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Streptomyces_griseus Streptomyces griseus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QAA OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2QAA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2qaa]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_griseus Streptomyces griseus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QAA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2QAA FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=LEU:LEUCINE'>LEU</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TYR:TYROSINE'>TYR</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=LEU:LEUCINE'>LEU</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TYR:TYROSINE'>TYR</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qa9\|2qa9]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2qa9\|2qa9]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Streptogrisin_B Streptogrisin B], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.81 3.4.21.81] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Streptogrisin_B Streptogrisin B], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.81 3.4.21.81] </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=2qaa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qaa OCA], [~~http~~://pdbe.org/2qaa PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2qaa RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2qaa PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2qaa 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=2qaa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qaa OCA], [https://pdbe.org/2qaa PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2qaa RCSB], [https://www.ebi.ac.uk/pdbsum/2qaa PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2qaa ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/PRTB_STRGR PRTB_STRGR]] Has a primary specificity for large aliphatic or aromatic amino acids.	+	[[https://www.uniprot.org/uniprot/PRTB_STRGR PRTB_STRGR]] Has a primary specificity for large aliphatic or aromatic amino acids.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 06:59, 3 June 2020

2020-06-03T06:59:58Z

←Older revision		Revision as of 06:59, 3 June 2020
Line 1:		Line 1:

	==Crystal structure of the second tetrahedral intermediates of SGPB at pH 7.3==		==Crystal structure of the second tetrahedral intermediates of SGPB at pH 7.3==
-	<StructureSection load='2qaa' size='340' side='right' caption='[[2qaa]], [[Resolution\|resolution]] 1.23Å' scene=''>	+	<StructureSection load='2qaa' size='340' side='right'caption='[[2qaa]], [[Resolution\|resolution]] 1.23Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2qaa]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptomyces_griseus Streptomyces griseus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QAA OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2QAA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2qaa]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptomyces_griseus Streptomyces griseus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QAA OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2QAA FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=LEU:LEUCINE'>LEU</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TYR:TYROSINE'>TYR</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=LEU:LEUCINE'>LEU</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TYR:TYROSINE'>TYR</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qa9\|2qa9]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qa9\|2qa9]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Streptogrisin_B Streptogrisin B], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.81 3.4.21.81] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Streptogrisin_B Streptogrisin B], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.81 3.4.21.81] </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=2qaa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qaa OCA], [http://pdbe.org/2qaa PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2qaa RCSB], [http://www.ebi.ac.uk/pdbsum/2qaa PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2qaa 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=2qaa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qaa OCA], [http://pdbe.org/2qaa PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2qaa RCSB], [http://www.ebi.ac.uk/pdbsum/2qaa PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2qaa ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 34:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Streptogrisin B]]		[[Category: Streptogrisin B]]
	[[Category: Streptomyces griseus]]		[[Category: Streptomyces griseus]]

OCA at 09:00, 29 August 2018

2018-08-29T09:00:00Z

←Older revision		Revision as of 09:00, 29 August 2018
Line 1:		Line 1:
		+
	==Crystal structure of the second tetrahedral intermediates of SGPB at pH 7.3==		==Crystal structure of the second tetrahedral intermediates of SGPB at pH 7.3==
	<StructureSection load='2qaa' size='340' side='right' caption='[[2qaa]], [[Resolution\|resolution]] 1.23Å' scene=''>		<StructureSection load='2qaa' size='340' side='right' caption='[[2qaa]], [[Resolution\|resolution]] 1.23Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2qaa]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~"actinomyces_griseus"_krainsky_1914 "actinomyces~~ griseus~~" krainsky 1914~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QAA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QAA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2qaa]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptomyces_griseus Streptomyces griseus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QAA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QAA FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TYR:TYROSINE'>TYR</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=LEU:LEUCINE'>LEU</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TYR:TYROSINE'>TYR</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qa9\|2qa9]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qa9\|2qa9]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Streptogrisin_B Streptogrisin B], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.81 3.4.21.81] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Streptogrisin_B Streptogrisin B], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.81 3.4.21.81] </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=2qaa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qaa OCA], [http://pdbe.org/2qaa PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2qaa RCSB], [http://www.ebi.ac.uk/pdbsum/2qaa 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=2qaa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qaa OCA], [http://pdbe.org/2qaa PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2qaa RCSB], [http://www.ebi.ac.uk/pdbsum/2qaa PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2qaa 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/qa/2qaa_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/qa/2qaa_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>
	</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=2qaa ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 33:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Actinomyces griseus krainsky 1914]]
	[[Category: Streptogrisin B]]		[[Category: Streptogrisin B]]
		+	[[Category: Streptomyces griseus]]
	[[Category: James, M N.G]]		[[Category: James, M N.G]]
	[[Category: Lee, T W]]		[[Category: Lee, T W]]

OCA at 11:44, 11 September 2015

2015-09-11T11:44:43Z

←Older revision		Revision as of 11:44, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='2qaa' size='340' side='right' caption='[[2qaa]], [[Resolution\|resolution]] 1.23Å' scene=''>		<StructureSection load='2qaa' size='340' side='right' caption='[[2qaa]], [[Resolution\|resolution]] 1.23Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2qaa]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Streptomyces_griseus Streptomyces~~ griseus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QAA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QAA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2qaa]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"actinomyces_griseus"_krainsky_1914 "actinomyces griseus" krainsky 1914]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QAA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QAA FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TYR:TYROSINE'>TYR</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TYR:TYROSINE'>TYR</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qa9\|2qa9]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qa9\|2qa9]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Streptogrisin_B Streptogrisin B], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.81 3.4.21.81] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Streptogrisin_B Streptogrisin B], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.81 3.4.21.81] </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=2qaa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qaa OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2qaa RCSB], [http://www.ebi.ac.uk/pdbsum/2qaa 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=2qaa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qaa OCA], [http://pdbe.org/2qaa PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2qaa RCSB], [http://www.ebi.ac.uk/pdbsum/2qaa PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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 2qaa" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Actinomyces griseus krainsky 1914]]
	[[Category: Streptogrisin B]]		[[Category: Streptogrisin B]]
-	[[Category: Streptomyces griseus]]
	[[Category: James, M N.G]]		[[Category: James, M N.G]]
	[[Category: Lee, T W]]		[[Category: Lee, T W]]

OCA at 16:00, 25 December 2014

2014-12-25T16:00:44Z

←Older revision		Revision as of 16:00, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2qaa]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptomyces_griseus Streptomyces griseus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QAA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QAA FirstGlance]. <br>		<table><tr><td colspan='2'>[[2qaa]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptomyces_griseus Streptomyces griseus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QAA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QAA FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TYR:TYROSINE'>TYR</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TYR:TYROSINE'>TYR</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qa9\|2qa9]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qa9\|2qa9]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Streptogrisin_B Streptogrisin B], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.81 3.4.21.81] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Streptogrisin_B Streptogrisin B], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.81 3.4.21.81] </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=2qaa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qaa OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2qaa RCSB], [http://www.ebi.ac.uk/pdbsum/2qaa 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=2qaa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qaa OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2qaa RCSB], [http://www.ebi.ac.uk/pdbsum/2qaa PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PRTB_STRGR PRTB_STRGR]] Has a primary specificity for large aliphatic or aromatic amino acids.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 34:
	[[Category: Streptogrisin B]]		[[Category: Streptogrisin B]]
	[[Category: Streptomyces griseus]]		[[Category: Streptomyces griseus]]
-	[[Category: James, M N.G.]]	+	[[Category: James, M N.G]]
-	[[Category: Lee, T W.]]	+	[[Category: Lee, T W]]
	[[Category: Alpha helix]]		[[Category: Alpha helix]]
	[[Category: Beta barrel]]		[[Category: Beta barrel]]

OCA at 19:06, 30 September 2014

2014-09-30T19:06:24Z

←Older revision		Revision as of 19:06, 30 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2qaa.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of the second tetrahedral intermediates of SGPB at pH 7.3==
		+	<StructureSection load='2qaa' size='340' side='right' caption='[[2qaa]], [[Resolution\|resolution]] 1.23Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2qaa]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptomyces_griseus Streptomyces griseus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QAA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QAA FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TYR:TYROSINE'>TYR</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qa9\|2qa9]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Streptogrisin_B Streptogrisin B], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.81 3.4.21.81] </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=2qaa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qaa OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2qaa RCSB], [http://www.ebi.ac.uk/pdbsum/2qaa 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/qa/2qaa_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 ==
		+	Streptogrisin B (SGPB) has served as one of the models for studying the catalytic activities of serine peptidases. Here we report its native crystal structures at pH 4.2 at a resolution of 1.18A, and at pH 7.3 at a resolution of 1.23A. Unexpectedly, outstanding electron density peaks occurred in the active site and the substrate-binding region of SGPB in the computed maps at both pHs. The densities at pH 4.2 were assigned as a tetrapeptide, Asp-Ala-Ile-Tyr, whereas those at pH 7.3 were assigned as a tyrosine molecule and a leucine molecule existing at equal occupancies in both of the SGPB molecules in the asymmetric unit. Refinement with relaxed geometric restraints resulted in molecular structures representing mixtures of the second tetrahedral intermediates and the enzyme-product complexes of SGPB existing in a pH-dependent equilibrium. Structural comparisons with the complexes of SGPB with turkey ovomucoid third domain (OMTKY3) and its variants have shown that, upon the formation of the tetrahedral intermediate, residues Glu192A to Gly193 of SGPB move towards the alpha-carboxylate O of residue P1 of the bound species, and adjustments in the side-chain conformational angles of His57 and Ser195 of SGPB favor the progression of the catalytic mechanism of SGPB.

-	~~{{STRUCTURE_2qaa\| PDB=2qaa \| SCENE= }}~~	+	1.2A-resolution crystal structures reveal the second tetrahedral intermediates of streptogrisin B (SGPB).,Lee TW, James MN Biochim Biophys Acta. 2008 Feb;1784(2):319-34. Epub 2007 Nov 29. PMID:18157955<ref>PMID:18157955</ref>

-	~~===Crystal structure~~ of the ~~second tetrahedral intermediates~~ of ~~SGPB at pH 7~~.~~3===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18157955}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2qaa]] is a 2 chain structure with sequence from [http:~~/~~/en.wikipedia.org/wiki/Streptomyces_griseus Streptomyces griseus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QAA OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:018157955<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Streptogrisin B]]		[[Category: Streptogrisin B]]
	[[Category: Streptomyces griseus]]		[[Category: Streptomyces griseus]]

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

2013-01-07T19:06:49Z

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

←Older revision

Revision as of 19:06, 7 January 2013

OCA at 19:06, 7 January 2013

2013-01-07T19:06:45Z

←Older revision		Revision as of 19:06, 7 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2qaa.png\|left\|200px]]		[[Image:2qaa.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2qaa", 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_2qaa\| PDB=2qaa \| SCENE= }}		{{STRUCTURE_2qaa\| PDB=2qaa \| SCENE= }}

	===Crystal structure of the second tetrahedral intermediates of SGPB at pH 7.3===		===Crystal structure of the second tetrahedral intermediates of SGPB at pH 7.3===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18157955}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18157955 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_18157955}}		{{ABSTRACT_PUBMED_18157955}}

	==About this Structure==		==About this Structure==
-	~~2QAA~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Streptomyces_griseus Streptomyces griseus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QAA OCA].	+	[[2qaa]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptomyces_griseus Streptomyces griseus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QAA OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18157955~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018157955</ref><references group="xtra"/>
	[[Category: Streptogrisin B]]		[[Category: Streptogrisin B]]
	[[Category: Streptomyces griseus]]		[[Category: Streptomyces griseus]]
Line 34:		Line 22:
	[[Category: Second tetrahedral intermediate]]		[[Category: Second tetrahedral intermediate]]
	[[Category: Single amino acid]]		[[Category: Single amino acid]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 21:10:05 2009''

OCA at 19:10, 17 February 2009

2009-02-17T19:10:06Z

←Older revision		Revision as of 19:10, 17 February 2009
Line 20:		Line 20:

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

	==Reference==		==Reference==
-	~~1.2A-resolution crystal structures reveal the second tetrahedral intermediates of streptogrisin B (SGPB)., Lee TW, James MN, Biochim Biophys Acta. 2008 Feb;1784(2):319-34. Epub 2007 Nov 29.~~ PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18157955 18157955]~~	+	<ref group="xtra">PMID:18157955</ref><references group="xtra"/>
-	~~[[Category: Single protein]]~~	+
	[[Category: Streptogrisin B]]		[[Category: Streptogrisin B]]
	[[Category: Streptomyces griseus]]		[[Category: Streptomyces griseus]]
Line 36:		Line 35:
	[[Category: Single amino acid]]		[[Category: Single amino acid]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue ~~Jul 29 05~~:13:~~32 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 21:10:05 2009''

OCA at 02:13, 29 July 2008

2008-07-29T02:13:36Z

←Older revision		Revision as of 02:13, 29 July 2008
Line 1:		Line 1:
-	[[Image:2qaa.~~jpg~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:2qaa.png\|left\|200px]]

	<!--		<!--
Line 9:		Line 10:
	{{STRUCTURE_2qaa\| PDB=2qaa \| SCENE= }}		{{STRUCTURE_2qaa\| PDB=2qaa \| SCENE= }}

-	~~'''~~Crystal structure of the second tetrahedral intermediates of SGPB at pH 7.3~~'''~~	+	===Crystal structure of the second tetrahedral intermediates of SGPB at pH 7.3===


-	~~==Overview==~~	+	<!--
-	~~Streptogrisin B (SGPB) has served as one of the models for studying the catalytic activities of serine peptidases. Here we report its native crystal structures at pH 4.2 at a resolution of 1.18A~~, ~~and at pH 7.3 at a resolution of 1.23A. Unexpectedly~~, ~~outstanding electron density peaks occurred in~~ the ~~active site and~~ the ~~substrate-binding region of SGPB in the computed maps at both pHs. The densities at pH 4.2 were assigned~~ as ~~a tetrapeptide, Asp-Ala-Ile-Tyr, whereas those~~ at ~~pH 7~~.~~3 were assigned as a tyrosine molecule and a leucine molecule existing at equal occupancies in both of the SGPB molecules in the asymmetric unit~~. Refinement with relaxed geometric restraints resulted in molecular structures representing mixtures of the second tetrahedral intermediates and the enzyme-product complexes of SGPB existing in a pH-dependent equilibrium. Structural comparisons with the complexes of SGPB with turkey ovomucoid third domain (OMTKY3) ~~and its variants have shown that~~, ~~upon~~ the ~~formation of the tetrahedral intermediate, residues Glu192A to Gly193 of SGPB move towards the alpha~~-~~carboxylate O of residue P1 of the bound species, and adjustments in the side~~-~~chain conformational angles of His57 and Ser195 of SGPB favor the progression of the catalytic mechanism of SGPB.~~	+	The line below this paragraph, {{ABSTRACT_PUBMED_18157955}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 18157955 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_18157955}}

	==About this Structure==		==About this Structure==
Line 31:		Line 35:
	[[Category: Second tetrahedral intermediate]]		[[Category: Second tetrahedral intermediate]]
	[[Category: Single amino acid]]		[[Category: Single amino acid]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun May 4 14~~:37:21 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 05:13:32 2008''