3k8z - Revision history

OCA at 08:29, 20 March 2024

OCA — Wed, 20 Mar 2024 08:29:25 GMT

←Older revision		Revision as of 08:29, 20 March 2024
Line 3:		Line 3:
	<StructureSection load='3k8z' size='340' side='right'caption='[[3k8z]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='3k8z' size='340' side='right'caption='[[3k8z]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3k8z]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"vibrio_subtilis"_ehrenberg_1835 "vibrio~~ subtilis~~" ehrenberg 1835~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K8Z OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=3K8Z FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3k8z]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K8Z OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3K8Z FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[3k92\|3k92]]</td></tr>~~	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.4Å</td></tr>
-	~~<tr~~ id~~='activity'><td class~~="~~sblockLbl~~">~~<b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>~~[~~http://en.wikipedia.org/wiki/Glutamate_dehydrogenase Glutamate dehydrogenase~~]~~, with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.1.~~2 1.4~~.1.2] </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=3k8z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k8z OCA], [https://pdbe.org/3k8z PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3k8z RCSB], [https://www.ebi.ac.uk/pdbsum/3k8z PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3k8z 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=3k8z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k8z OCA], [~~http~~://pdbe.org/3k8z PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3k8z RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3k8z PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3k8z ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/GUDB_BACSU GUDB_BACSU]] GudB seems to be intrinsically inactive, however spontaneous mutations removing a 9-bp direct repeat within the wild-type gudB sequence activated the GudB protein and allowed more-efficient utilization of amino acids of the glutamate family. This insertion presumably causes severe destabilization of the fold of the protein, leading to an inactive enzyme that is very quickly degraded. The cryptic GudB serves as a buffer that may compensate for mutations in the rocG gene and that can also be decryptified for the utilization of glutamate as a single carbon source in the absence of arginine. It is unable to synthesize glutamate.<ref>PMID:9829940</ref> <ref>PMID:18326565</ref>	+	[https://www.uniprot.org/uniprot/GUDB_BACSU GUDB_BACSU] GudB seems to be intrinsically inactive, however spontaneous mutations removing a 9-bp direct repeat within the wild-type gudB sequence activated the GudB protein and allowed more-efficient utilization of amino acids of the glutamate family. This insertion presumably causes severe destabilization of the fold of the protein, leading to an inactive enzyme that is very quickly degraded. The cryptic GudB serves as a buffer that may compensate for mutations in the rocG gene and that can also be decryptified for the utilization of glutamate as a single carbon source in the absence of arginine. It is unable to synthesize glutamate.<ref>PMID:9829940</ref> <ref>PMID:18326565</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 20:		Line 19:
	</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=3k8z 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=3k8z ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Any signal transduction requires communication between a sensory component and an effector. Some enzymes engage in signal perception and transduction, as well as in catalysis, and these proteins are known as "trigger" enzymes. In this report, we detail the trigger properties of RocG, the glutamate dehydrogenase of Bacillus subtilis. RocG not only deaminates the key metabolite glutamate to form alpha-ketoglutarate but also interacts directly with GltC, a LysR-type transcription factor that regulates glutamate biosynthesis from alpha-ketoglutarate, thus linking the two metabolic pathways. We have isolated mutants of RocG that separate the two functions. Several mutations resulted in permanent inactivation of GltC as long as a source of glutamate was present. These RocG proteins have lost their ability to catabolize glutamate due to a strongly reduced affinity for glutamate. The second class of mutants is exemplified by the replacement of aspartate residue 122 by asparagine. This mutant protein has retained enzymatic activity but has lost the ability to control the activity of GltC. Crystal structures of glutamate dehydrogenases that permit a molecular explanation of the properties of the various mutants are presented. Specifically, we may propose that D122N replacement affects the surface of RocG. Our data provide evidence for a correlation between the enzymatic activity of RocG and its ability to inactivate GltC, and thus give insights into the mechanism that couples the enzymatic activity of a trigger enzyme to its regulatory function.
-
-	Functional dissection of a trigger enzyme: mutations of the bacillus subtilis glutamate dehydrogenase RocG that affect differentially its catalytic activity and regulatory properties.,Gunka K, Newman JA, Commichau FM, Herzberg C, Rodrigues C, Hewitt L, Lewis RJ, Stulke J J Mol Biol. 2010 Jul 23;400(4):815-27. Epub 2010 May 31. PMID:20630473<ref>PMID:20630473</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 3k8z" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 36:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Vibrio~~ subtilis ~~ehrenberg 1835]]~~	+	[[Category: Bacillus subtilis]]
-	~~[[Category: Glutamate dehydrogenase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Commichau~~, F M~~]]	+	[[Category: Commichau FM]]
-	[[Category: Gunka, K]]	+	[[Category: Gunka K]]
-	[[Category: Herzberg, C]]	+	[[Category: Herzberg C]]
-	[[Category: Hewitt, L]]	+	[[Category: Hewitt L]]
-	[[Category: Lewis~~, R J~~]]	+	[[Category: Lewis RJ]]
-	[[Category: Newman~~, J A~~]]	+	[[Category: Newman JA]]
-	[[Category: Rodrigues, C]]	+	[[Category: Rodrigues C]]
-	[[Category: Stulke, J]]	+	[[Category: Stulke J]]
-	~~[[Category: Gudb]]~~	+
-	~~[[Category: Nad]]~~	+
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 07:00, 7 October 2020

OCA — Wed, 07 Oct 2020 07:00:52 GMT

←Older revision		Revision as of 07:00, 7 October 2020
Line 1:		Line 1:

	==Crystal Structure of Gudb1 a decryptified secondary glutamate dehydrogenase from B. subtilis==		==Crystal Structure of Gudb1 a decryptified secondary glutamate dehydrogenase from B. subtilis==
-	<StructureSection load='3k8z' size='340' side='right' caption='[[3k8z]], [[Resolution\|resolution]] 2.40Å' scene=''>	+	<StructureSection load='3k8z' size='340' side='right'caption='[[3k8z]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3k8z]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/"vibrio_subtilis"_ehrenberg_1835 "vibrio subtilis" ehrenberg 1835]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K8Z OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3K8Z FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3k8z]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/"vibrio_subtilis"_ehrenberg_1835 "vibrio subtilis" ehrenberg 1835]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K8Z OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=3K8Z FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3k92\|3k92]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3k92\|3k92]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutamate_dehydrogenase Glutamate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.1.2 1.4.1.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutamate_dehydrogenase Glutamate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.1.2 1.4.1.2] </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=3k8z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k8z OCA], [http://pdbe.org/3k8z PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3k8z RCSB], [http://www.ebi.ac.uk/pdbsum/3k8z PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3k8z 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=3k8z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k8z OCA], [http://pdbe.org/3k8z PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3k8z RCSB], [http://www.ebi.ac.uk/pdbsum/3k8z PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3k8z ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 31:		Line 31:

	==See Also==		==See Also==
-	*[[Glutamate dehydrogenase\|Glutamate dehydrogenase]]	+	*[[Glutamate dehydrogenase 3D structures\|Glutamate dehydrogenase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 38:		Line 38:
	[[Category: Vibrio subtilis ehrenberg 1835]]		[[Category: Vibrio subtilis ehrenberg 1835]]
	[[Category: Glutamate dehydrogenase]]		[[Category: Glutamate dehydrogenase]]
		+	[[Category: Large Structures]]
	[[Category: Commichau, F M]]		[[Category: Commichau, F M]]
	[[Category: Gunka, K]]		[[Category: Gunka, K]]

OCA at 09:40, 26 December 2018

OCA — Wed, 26 Dec 2018 09:40:57 GMT

←Older revision		Revision as of 09:40, 26 December 2018
Line 3:		Line 3:
	<StructureSection load='3k8z' size='340' side='right' caption='[[3k8z]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='3k8z' size='340' side='right' caption='[[3k8z]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3k8z]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/"~~bacillus_globigii~~"~~_migula_1900~~ "~~bacillus globigii~~" ~~migula 1900~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K8Z OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3K8Z FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3k8z]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/"vibrio_subtilis"_ehrenberg_1835 "vibrio subtilis" ehrenberg 1835]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K8Z OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3K8Z FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3k92\|3k92]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3k92\|3k92]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutamate_dehydrogenase Glutamate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.1.2 1.4.1.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutamate_dehydrogenase Glutamate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.1.2 1.4.1.2] </span></td></tr>
Line 14:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/k8/3k8z_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/k8/3k8z_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus globigii migula 1900~~]]	+	[[Category: Vibrio subtilis ehrenberg 1835]]
	[[Category: Glutamate dehydrogenase]]		[[Category: Glutamate dehydrogenase]]
	[[Category: Commichau, F M]]		[[Category: Commichau, F M]]

OCA at 06:21, 5 August 2016

OCA — Fri, 05 Aug 2016 06:21:39 GMT

←Older revision		Revision as of 06:21, 5 August 2016
Line 1:		Line 1:
		+
	==Crystal Structure of Gudb1 a decryptified secondary glutamate dehydrogenase from B. subtilis==		==Crystal Structure of Gudb1 a decryptified secondary glutamate dehydrogenase from B. subtilis==
	<StructureSection load='3k8z' size='340' side='right' caption='[[3k8z]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='3k8z' size='340' side='right' caption='[[3k8z]], [[Resolution\|resolution]] 2.40Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3k92\|3k92]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3k92\|3k92]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutamate_dehydrogenase Glutamate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.1.2 1.4.1.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutamate_dehydrogenase Glutamate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.1.2 1.4.1.2] </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=3k8z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k8z OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3k8z RCSB], [http://www.ebi.ac.uk/pdbsum/3k8z 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=3k8z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k8z OCA], [http://pdbe.org/3k8z PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3k8z RCSB], [http://www.ebi.ac.uk/pdbsum/3k8z PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3k8z ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		Line 18:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3k8z ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 27:		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 3k8z" style="background-color:#fffaf0;"></div>

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

OCA at 23:47, 24 December 2014

OCA — Wed, 24 Dec 2014 23:47:59 GMT

←Older revision		Revision as of 23:47, 24 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_3k8z\| PDB=3k8z \| SCENE= }}~~	+	==Crystal Structure of Gudb1 a decryptified secondary glutamate dehydrogenase from B. subtilis==
-	===Crystal Structure of Gudb1 a decryptified secondary glutamate dehydrogenase from B. subtilis===	+	<StructureSection load='3k8z' size='340' side='right' caption='[[3k8z]], [[Resolution\|resolution]] 2.40Å' scene=''>
-	~~{{ABSTRACT_PUBMED_20630473}}~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[3k8z]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_globigii"_migula_1900 "bacillus globigii" migula 1900]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K8Z OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3K8Z FirstGlance]. <br>
-	==Function==	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3k92\|3k92]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutamate_dehydrogenase Glutamate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.1.2 1.4.1.2] </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=3k8z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k8z OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3k8z RCSB], [http://www.ebi.ac.uk/pdbsum/3k8z PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
	[[http://www.uniprot.org/uniprot/GUDB_BACSU GUDB_BACSU]] GudB seems to be intrinsically inactive, however spontaneous mutations removing a 9-bp direct repeat within the wild-type gudB sequence activated the GudB protein and allowed more-efficient utilization of amino acids of the glutamate family. This insertion presumably causes severe destabilization of the fold of the protein, leading to an inactive enzyme that is very quickly degraded. The cryptic GudB serves as a buffer that may compensate for mutations in the rocG gene and that can also be decryptified for the utilization of glutamate as a single carbon source in the absence of arginine. It is unable to synthesize glutamate.<ref>PMID:9829940</ref> <ref>PMID:18326565</ref>		[[http://www.uniprot.org/uniprot/GUDB_BACSU GUDB_BACSU]] GudB seems to be intrinsically inactive, however spontaneous mutations removing a 9-bp direct repeat within the wild-type gudB sequence activated the GudB protein and allowed more-efficient utilization of amino acids of the glutamate family. This insertion presumably causes severe destabilization of the fold of the protein, leading to an inactive enzyme that is very quickly degraded. The cryptic GudB serves as a buffer that may compensate for mutations in the rocG gene and that can also be decryptified for the utilization of glutamate as a single carbon source in the absence of arginine. It is unable to synthesize glutamate.<ref>PMID:9829940</ref> <ref>PMID:18326565</ref>
		+	== 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/k8/3k8z_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 ==
		+	Any signal transduction requires communication between a sensory component and an effector. Some enzymes engage in signal perception and transduction, as well as in catalysis, and these proteins are known as "trigger" enzymes. In this report, we detail the trigger properties of RocG, the glutamate dehydrogenase of Bacillus subtilis. RocG not only deaminates the key metabolite glutamate to form alpha-ketoglutarate but also interacts directly with GltC, a LysR-type transcription factor that regulates glutamate biosynthesis from alpha-ketoglutarate, thus linking the two metabolic pathways. We have isolated mutants of RocG that separate the two functions. Several mutations resulted in permanent inactivation of GltC as long as a source of glutamate was present. These RocG proteins have lost their ability to catabolize glutamate due to a strongly reduced affinity for glutamate. The second class of mutants is exemplified by the replacement of aspartate residue 122 by asparagine. This mutant protein has retained enzymatic activity but has lost the ability to control the activity of GltC. Crystal structures of glutamate dehydrogenases that permit a molecular explanation of the properties of the various mutants are presented. Specifically, we may propose that D122N replacement affects the surface of RocG. Our data provide evidence for a correlation between the enzymatic activity of RocG and its ability to inactivate GltC, and thus give insights into the mechanism that couples the enzymatic activity of a trigger enzyme to its regulatory function.

-	~~==About this Structure==~~	+	Functional dissection of a trigger enzyme: mutations of the bacillus subtilis glutamate dehydrogenase RocG that affect differentially its catalytic activity and regulatory properties.,Gunka K, Newman JA, Commichau FM, Herzberg C, Rodrigues C, Hewitt L, Lewis RJ, Stulke J J Mol Biol. 2010 Jul 23;400(4):815-27. Epub 2010 May 31. PMID:20630473<ref>PMID:20630473</ref>
-	~~[[3k8z]] is~~ a ~~6 chain structure with sequence from [http~~:~~//en~~.~~wikipedia~~.~~org/wiki/"bacillus_globigii"_migula_1900 "bacillus globigii" migula 1900]~~. ~~Full crystallographic information is available from [http~~://~~oca~~.~~weizmann~~.ac.il/~~oca-bin/ocashort?id=3K8Z OCA].~~	+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

	==See Also==		==See Also==
	*[[Glutamate dehydrogenase\|Glutamate dehydrogenase]]		*[[Glutamate dehydrogenase\|Glutamate dehydrogenase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	~~<ref group="xtra">PMID:020630473</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Bacillus globigii migula 1900]]		[[Category: Bacillus globigii migula 1900]]
	[[Category: Glutamate dehydrogenase]]		[[Category: Glutamate dehydrogenase]]
-	[[Category: Commichau, F M.]]	+	[[Category: Commichau, F M]]
-	[[Category: Gunka, K.]]	+	[[Category: Gunka, K]]
-	[[Category: Herzberg, C.]]	+	[[Category: Herzberg, C]]
-	[[Category: Hewitt, L.]]	+	[[Category: Hewitt, L]]
-	[[Category: Lewis, R J.]]	+	[[Category: Lewis, R J]]
-	[[Category: Newman, J A.]]	+	[[Category: Newman, J A]]
-	[[Category: Rodrigues, C.]]	+	[[Category: Rodrigues, C]]
-	[[Category: Stulke, J~~.]]~~	+	[[Category: Stulke, J]]
-	~~[[Category: Glutamate dehydrogenase~~]]	+
	[[Category: Gudb]]		[[Category: Gudb]]
	[[Category: Nad]]		[[Category: Nad]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

OCA at 06:20, 22 January 2014

OCA — Wed, 22 Jan 2014 06:20:42 GMT

←Older revision		Revision as of 06:20, 22 January 2014
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-	[[Image:3k8z.png\|left\|200px]]
-
	{{STRUCTURE_3k8z\| PDB=3k8z \| SCENE= }}		{{STRUCTURE_3k8z\| PDB=3k8z \| SCENE= }}
-
	===Crystal Structure of Gudb1 a decryptified secondary glutamate dehydrogenase from B. subtilis===		===Crystal Structure of Gudb1 a decryptified secondary glutamate dehydrogenase from B. subtilis===
		+	{{ABSTRACT_PUBMED_20630473}}

-	~~{{ABSTRACT_PUBMED_020630473}}~~	+	==Function==
		+	[[http://www.uniprot.org/uniprot/GUDB_BACSU GUDB_BACSU]] GudB seems to be intrinsically inactive, however spontaneous mutations removing a 9-bp direct repeat within the wild-type gudB sequence activated the GudB protein and allowed more-efficient utilization of amino acids of the glutamate family. This insertion presumably causes severe destabilization of the fold of the protein, leading to an inactive enzyme that is very quickly degraded. The cryptic GudB serves as a buffer that may compensate for mutations in the rocG gene and that can also be decryptified for the utilization of glutamate as a single carbon source in the absence of arginine. It is unable to synthesize glutamate.<ref>PMID:9829940</ref> <ref>PMID:18326565</ref>

	==About this Structure==		==About this Structure==
-	[[3k8z]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Bacillus_subtilis Bacillus subtilis~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K8Z OCA].	+	[[3k8z]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_globigii"_migula_1900 "bacillus globigii" migula 1900]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K8Z OCA].

	==See Also==		==See Also==
Line 14:		Line 13:

	==Reference==		==Reference==
-	<ref group="xtra">PMID:020630473</ref><references group="xtra"/>	+	<ref group="xtra">PMID:020630473</ref><references group="xtra"/><references/>
-	[[Category: Bacillus ~~subtilis~~]]	+	[[Category: Bacillus globigii migula 1900]]
	[[Category: Glutamate dehydrogenase]]		[[Category: Glutamate dehydrogenase]]
	[[Category: Commichau, F M.]]		[[Category: Commichau, F M.]]

OCA at 10:22, 20 October 2012

OCA — Sat, 20 Oct 2012 10:22:15 GMT

←Older revision		Revision as of 10:22, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[3k8z]] is a 6 chain structure ~~of [[Glutamate dehydrogenase]]~~ with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K8Z OCA].	+	[[3k8z]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K8Z OCA].

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

OCA: Protected "3k8z" [edit=sysop:move=sysop]

OCA — Thu, 26 Jul 2012 01:52:57 GMT

Protected "3k8z" [edit=sysop:move=sysop]

←Older revision

Revision as of 01:52, 26 July 2012

OCA at 01:52, 26 July 2012

OCA — Thu, 26 Jul 2012 01:52:55 GMT

←Older revision		Revision as of 01:52, 26 July 2012
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-	{{Seed}}
	[[Image:3k8z.png\|left\|200px]]		[[Image:3k8z.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3k8z", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
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	{{STRUCTURE_3k8z\| PDB=3k8z \| SCENE= }}		{{STRUCTURE_3k8z\| PDB=3k8z \| SCENE= }}

	===Crystal Structure of Gudb1 a decryptified secondary glutamate dehydrogenase from B. subtilis===		===Crystal Structure of Gudb1 a decryptified secondary glutamate dehydrogenase from B. subtilis===

		+	{{ABSTRACT_PUBMED_020630473}}

	==About this Structure==		==About this Structure==
-	~~3K8Z~~ is a 6 ~~chains~~ structure with ~~sequences~~ from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K8Z OCA].	+	[[3k8z]] is a 6 chain structure of [[Glutamate dehydrogenase]] with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K8Z OCA].
		+
		+	==See Also==
		+	*[[Glutamate dehydrogenase\|Glutamate dehydrogenase]]
		+
		+	==Reference==
		+	<ref group="xtra">PMID:020630473</ref><references group="xtra"/>
	[[Category: Bacillus subtilis]]		[[Category: Bacillus subtilis]]
	[[Category: Glutamate dehydrogenase]]		[[Category: Glutamate dehydrogenase]]
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	[[Category: Nad]]		[[Category: Nad]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jun 23 08:38:48 2010''

OCA at 04:33, 23 June 2010

OCA — Wed, 23 Jun 2010 04:33:30 GMT

←Older revision		Revision as of 04:33, 23 June 2010
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-	[[Image:3k8z.~~jpg~~\|left\|200px]]	+	[[Image:3k8z.png\|left\|200px]]

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	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jun 2 08:38:27 2010''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jun 23 08:38:48 2010''