3mvo - Revision history

OCA: Redirecting to 6dhn

2018-07-25T07:05:03Z

Redirecting to 6dhn

←Older revision		Revision as of 07:05, 25 July 2018
Line 1:		Line 1:
-		+	#REDIRECT [[6dhn]] This PDB entry is obsolete and replaced by 6dhn
-	~~==Crystal structure of bovine glutamate dehydrogenase complexed with Eu3+==~~	+
-	~~<StructureSection load='3mvo' size='340' side='right' caption='~~[[~~3mvo]], [[Resolution\|resolution]] 3.23Å' scene=''>~~	+
-	~~== Structural highlights ==~~	+
-	~~<table><tr><td colspan='2'>[[3mvo~~]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MVO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3MVO FirstGlance]. <br>	+
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EU3:EUROPIUM+(III)+ION'>EU3</scene>, <scene name='pdbligand=GLU:GLUTAMIC+ACID'>GLU</scene>, <scene name='pdbligand=NDP:NADPH+DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NDP</scene></td></tr>	+
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hwz\|1hwz]], [[3mvq\|3mvq]]</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_(NAD(P)(+)) Glutamate dehydrogenase (NAD(P)(+))], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.1.3 1.4.1.3] </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=3mvo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3mvo OCA], [http://pdbe.org/3mvo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3mvo RCSB], [http://www.ebi.ac.uk/pdbsum/3mvo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3mvo ProSAT]</span></td></tr>	+
-	~~</table>~~	+
-	~~== Function ==~~	+
-	~~[[http://www.uniprot.org/uniprot/DHE3_BOVIN DHE3_BOVIN]] May be involved in learning~~ and ~~memory reactions~~ by ~~increasing the turnover of the excitatory neurotransmitter glutamate (By similarity).<ref>PMID:14659072</ref>~~	+
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	Bovine glutamate dehydrogenase is potently inhibited by zinc and the major impact is on V(max) suggesting a V-type effect on catalysis or product release. Zinc inhibition decreases as glutamate concentrations decrease suggesting a role for subunit interactions. With the monocarboxylic amino acid norvaline, which gives no evidence of subunit interactions, zinc does not inhibit. Zinc significantly decreases the size of the pre-steady state burst in the reaction but does not affect NADPH binding in the enzyme-NADPH-glutamate complex that governs the steady state turnover, again suggesting that zinc disrupts subunit interactions required for catalytic competence. While differential scanning calorimetry suggests zinc binds and induces a slightly conformationally more rigid state of the protein, limited proteolysis indicates that regions in the vicinity of the antennae regions and the trimer-trimer interface become more flexible. The structures of glutamate dehydrogenase bound with zinc and europium show that zinc binds between the three dimers of subunits in the hexamer, a region shown to bind novel inhibitors that block catalytic turnover, which is consistent with the above findings. In contrast, europium binds to the base of the antenna region and appears to abrogate the inhibitory effect of zinc. Structures of various states of the enzyme have shown that both regions are heavily involved in the conformational changes associated with catalytic turnover. These results suggest that the V-type inhibition produced with glutamate as the substrate results from disruption of subunit interactions necessary for efficient catalysis rather than by a direct effect on the active site conformation. Structured digital abstract * GHD binds to GHD by x-ray crystallography (View interaction).	+
-		+
-	A novel mechanism of V-type zinc inhibition of glutamate dehydrogenase results from disruption of subunit interactions necessary for efficient catalysis.,Bailey J, Powell L, Sinanan L, Neal J, Li M, Smith T, Bell E FEBS J. 2011 Sep;278(17):3140-51. doi: 10.1111/j.1742-4658.2011.08240.x., Epub 2011 Aug 11. PMID:21749647<ref>PMID:21749647</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 3mvo" style="background-color:#fffaf0;"></div>~~	+
-		+
-	~~==See Also==~~	+
-	*[[Glutamate dehydrogenase\|Glutamate dehydrogenase]]	+
-	~~== References ==~~	+
-	~~<references/>~~	+
-	~~__TOC__~~	+
-	~~</StructureSection>~~	+
-	~~[[Category: Bos taurus]]~~	+
-	~~[[Category: Li, M]]~~	+
-	~~[[Category: Smith, T J]]~~	+
-	~~[[Category: Eu3+]]~~	+
-	~~[[Category: Gdh]]~~	+
-	~~[[Category: Glutamate dehydrogenase]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+

OCA at 00:37, 5 August 2016

2016-08-05T00:37:11Z

←Older revision		Revision as of 00:37, 5 August 2016
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		+
	==Crystal structure of bovine glutamate dehydrogenase complexed with Eu3+==		==Crystal structure of bovine glutamate dehydrogenase complexed with Eu3+==
	<StructureSection load='3mvo' size='340' side='right' caption='[[3mvo]], [[Resolution\|resolution]] 3.23Å' scene=''>		<StructureSection load='3mvo' size='340' side='right' caption='[[3mvo]], [[Resolution\|resolution]] 3.23Å' scene=''>
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	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hwz\|1hwz]], [[3mvq\|3mvq]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hwz\|1hwz]], [[3mvq\|3mvq]]</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_(NAD(P)(+)) Glutamate dehydrogenase (NAD(P)(+))], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.1.3 1.4.1.3] </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_(NAD(P)(+)) Glutamate dehydrogenase (NAD(P)(+))], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.1.3 1.4.1.3] </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=3mvo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3mvo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3mvo RCSB], [http://www.ebi.ac.uk/pdbsum/3mvo 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=3mvo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3mvo OCA], [http://pdbe.org/3mvo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3mvo RCSB], [http://www.ebi.ac.uk/pdbsum/3mvo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3mvo ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	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 3mvo" style="background-color:#fffaf0;"></div>

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

OCA at 14:25, 25 December 2014

2014-12-25T14:25:34Z

←Older revision		Revision as of 14:25, 25 December 2014
Line 8:		Line 8:
	<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=3mvo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3mvo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3mvo RCSB], [http://www.ebi.ac.uk/pdbsum/3mvo 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=3mvo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3mvo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3mvo RCSB], [http://www.ebi.ac.uk/pdbsum/3mvo PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/DHE3_BOVIN DHE3_BOVIN]] May be involved in learning and memory reactions by increasing the turnover of the excitatory neurotransmitter glutamate (By similarity).<ref>PMID:14659072</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 09:30, 9 December 2014

2014-12-09T09:30:02Z

←Older revision		Revision as of 09:30, 9 December 2014
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-	[[~~Image:~~3mvo.~~png~~\|~~left~~\|~~200px~~]]	+	==Crystal structure of bovine glutamate dehydrogenase complexed with Eu3+==
		+	<StructureSection load='3mvo' size='340' side='right' caption='[[3mvo]], [[Resolution\|resolution]] 3.23Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3mvo]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MVO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3MVO FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EU3:EUROPIUM+(III)+ION'>EU3</scene>, <scene name='pdbligand=GLU:GLUTAMIC+ACID'>GLU</scene>, <scene name='pdbligand=NDP:NADPH+DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NDP</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hwz\|1hwz]], [[3mvq\|3mvq]]</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_(NAD(P)(+)) Glutamate dehydrogenase (NAD(P)(+))], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.1.3 1.4.1.3] </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=3mvo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3mvo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3mvo RCSB], [http://www.ebi.ac.uk/pdbsum/3mvo PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Bovine glutamate dehydrogenase is potently inhibited by zinc and the major impact is on V(max) suggesting a V-type effect on catalysis or product release. Zinc inhibition decreases as glutamate concentrations decrease suggesting a role for subunit interactions. With the monocarboxylic amino acid norvaline, which gives no evidence of subunit interactions, zinc does not inhibit. Zinc significantly decreases the size of the pre-steady state burst in the reaction but does not affect NADPH binding in the enzyme-NADPH-glutamate complex that governs the steady state turnover, again suggesting that zinc disrupts subunit interactions required for catalytic competence. While differential scanning calorimetry suggests zinc binds and induces a slightly conformationally more rigid state of the protein, limited proteolysis indicates that regions in the vicinity of the antennae regions and the trimer-trimer interface become more flexible. The structures of glutamate dehydrogenase bound with zinc and europium show that zinc binds between the three dimers of subunits in the hexamer, a region shown to bind novel inhibitors that block catalytic turnover, which is consistent with the above findings. In contrast, europium binds to the base of the antenna region and appears to abrogate the inhibitory effect of zinc. Structures of various states of the enzyme have shown that both regions are heavily involved in the conformational changes associated with catalytic turnover. These results suggest that the V-type inhibition produced with glutamate as the substrate results from disruption of subunit interactions necessary for efficient catalysis rather than by a direct effect on the active site conformation. Structured digital abstract * GHD binds to GHD by x-ray crystallography (View interaction).

-	~~{{STRUCTURE_3mvo\| PDB=3mvo \| SCENE= }}~~	+	A novel mechanism of V-type zinc inhibition of glutamate dehydrogenase results from disruption of subunit interactions necessary for efficient catalysis.,Bailey J, Powell L, Sinanan L, Neal J, Li M, Smith T, Bell E FEBS J. 2011 Sep;278(17):3140-51. doi: 10.1111/j.1742-4658.2011.08240.x., Epub 2011 Aug 11. PMID:21749647<ref>PMID:21749647</ref>

-	~~===Crystal structure~~ of ~~bovine glutamate dehydrogenase complexed with Eu3+===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_21749647}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3mvo]] is a 6 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Bos_taurus Bos taurus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3MVO OCA].~~	+

	==See Also==		==See Also==
	*[[Glutamate dehydrogenase\|Glutamate dehydrogenase]]		*[[Glutamate dehydrogenase\|Glutamate dehydrogenase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:021749647<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Bos taurus]]		[[Category: Bos taurus]]
-	[[Category: Li, M.]]	+	[[Category: Li, M]]
-	[[Category: Smith, T J.]]	+	[[Category: Smith, T J]]
	[[Category: Eu3+]]		[[Category: Eu3+]]
	[[Category: Gdh]]		[[Category: Gdh]]
	[[Category: Glutamate dehydrogenase]]		[[Category: Glutamate dehydrogenase]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

OCA at 17:48, 20 October 2012

2012-10-20T17:48:03Z

←Older revision		Revision as of 17:48, 20 October 2012
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	==About this Structure==		==About this Structure==
-	[[3mvo]] is a 6 chain structure ~~of [[Glutamate dehydrogenase]]~~ with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MVO OCA].	+	[[3mvo]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MVO OCA].

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

OCA at 02:02, 27 July 2012

2012-07-27T02:02:00Z

←Older revision		Revision as of 02:02, 27 July 2012
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	[[Image:3mvo.png\|left\|200px]]		[[Image:3mvo.png\|left\|200px]]

-	<!--
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-	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.
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	{{STRUCTURE_3mvo\| PDB=3mvo \| SCENE= }}		{{STRUCTURE_3mvo\| PDB=3mvo \| SCENE= }}

	===Crystal structure of bovine glutamate dehydrogenase complexed with Eu3+===		===Crystal structure of bovine glutamate dehydrogenase complexed with Eu3+===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_21749647}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 21749647 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_21749647}}		{{ABSTRACT_PUBMED_21749647}}

	==About this Structure==		==About this Structure==
-	[[3mvo]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MVO OCA].	+	[[3mvo]] is a 6 chain structure of [[Glutamate dehydrogenase]] with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MVO OCA].
		+
		+	==See Also==
		+	*[[Glutamate dehydrogenase\|Glutamate dehydrogenase]]

	==Reference==		==Reference==

OCA at 05:52, 31 August 2011

2011-08-31T05:52:59Z

←Older revision		Revision as of 05:52, 31 August 2011
Line 1:		Line 1:
-	[[Image:3mvo.~~jpg~~\|left\|200px]]	+	[[Image:3mvo.png\|left\|200px]]

	<!--		<!--
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	===Crystal structure of bovine glutamate dehydrogenase complexed with Eu3+===		===Crystal structure of bovine glutamate dehydrogenase complexed with Eu3+===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_21749647}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 21749647 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_21749647}}

	==About this Structure==		==About this Structure==
	[[3mvo]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MVO OCA].		[[3mvo]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MVO OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:021749647</ref><references group="xtra"/>
	[[Category: Bos taurus]]		[[Category: Bos taurus]]
	[[Category: Li, M.]]		[[Category: Li, M.]]
	[[Category: Smith, T J.]]		[[Category: Smith, T J.]]
		+	[[Category: Eu3+]]
		+	[[Category: Gdh]]
		+	[[Category: Glutamate dehydrogenase]]
		+	[[Category: Oxidoreductase]]

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

2011-05-04T06:58:54Z

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

←Older revision

Revision as of 06:58, 4 May 2011

OCA at 06:58, 4 May 2011

2011-05-04T06:58:48Z

←Older revision		Revision as of 06:58, 4 May 2011
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-	~~'''Unreleased structure'''~~	+	[[Image:3mvo.jpg\|left\|200px]]

-	The ~~entry 3mvo~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3mvo", 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_3mvo\| PDB=3mvo \| SCENE= }}

-	~~Authors: Smith, T.J., Li, M.~~	+	===Crystal structure of bovine glutamate dehydrogenase complexed with Eu3+===

-	Description: Crystal structure of bovine glutamate dehydrogenase complexed with Eu3+

-	~~''Page seeded by~~ [http://oca.weizmann.ac.il/oca OCA ] ~~on Wed Dec 22 09~~:32:~~23 2010''~~	+	==About this Structure==
		+	[[3mvo]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MVO OCA].
		+	[[Category: Bos taurus]]
		+	[[Category: Li, M.]]
		+	[[Category: Smith, T J.]]

OCA at 06:19, 22 December 2010

2010-12-22T06:19:46Z

←Older revision		Revision as of 06:19, 22 December 2010
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Smith, T.J., Li, M.		Authors: Smith, T.J., Li, M.
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	Description: Crystal structure of bovine glutamate dehydrogenase complexed with Eu3+		Description: Crystal structure of bovine glutamate dehydrogenase complexed with Eu3+

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Thu May 20~~ 09:18:42 2010''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Dec 22 09:32:23 2010''