5yfm - Revision history

OCA at 08:28, 22 November 2023

2023-11-22T08:28:57Z

←Older revision		Revision as of 08:28, 22 November 2023
Line 3:		Line 3:
	<StructureSection load='5yfm' size='340' side='right'caption='[[5yfm]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='5yfm' size='340' side='right'caption='[[5yfm]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5yfm]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YFM OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5YFM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5yfm]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YFM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5YFM FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>~~, ~~<scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</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]] 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/Isocitrate_dehydrogenase_(~~NADP(+~~)) Isocitrate dehydrogenase (NADP(~~+~~))], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.42 1.1.1.42]~~ </~~span~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></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=5yfm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yfm OCA], [~~http~~://pdbe.org/5yfm PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5yfm RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5yfm PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5yfm 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=5yfm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yfm OCA], [https://pdbe.org/5yfm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5yfm RCSB], [https://www.ebi.ac.uk/pdbsum/5yfm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5yfm ProSAT]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==
-	[~~[http~~://www.uniprot.org/uniprot/IDHC_HUMAN IDHC_HUMAN]] Defects in IDH1 are involved in the development of glioma (GLM) [MIM:[~~http~~://omim.org/entry/137800 137800]]. Gliomas are central nervous system neoplasms derived from glial cells and comprise astrocytomas, glioblastoma multiforme, oligodendrogliomas, and ependymomas. Note=Mutations affecting Arg-132 are tissue-specific, and suggest that this residue plays a unique role in the development of high-grade gliomas. Mutations of Arg-132 to Cys, His, Leu or Ser abolish magnesium binding and abolish the conversion of isocitrate to alpha-ketoglutarate. Instead, alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate. Elevated levels of R(-)-2-hydroxyglutarate are correlated with an elevated risk of malignant brain tumors.	+	[https://www.uniprot.org/uniprot/IDHC_HUMAN IDHC_HUMAN] Defects in IDH1 are involved in the development of glioma (GLM) [MIM:[https://omim.org/entry/137800 137800]. Gliomas are central nervous system neoplasms derived from glial cells and comprise astrocytomas, glioblastoma multiforme, oligodendrogliomas, and ependymomas. Note=Mutations affecting Arg-132 are tissue-specific, and suggest that this residue plays a unique role in the development of high-grade gliomas. Mutations of Arg-132 to Cys, His, Leu or Ser abolish magnesium binding and abolish the conversion of isocitrate to alpha-ketoglutarate. Instead, alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate. Elevated levels of R(-)-2-hydroxyglutarate are correlated with an elevated risk of malignant brain tumors.
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/IDHC_HUMAN IDHC_HUMAN]

	==See Also==		==See Also==
Line 15:		Line 17:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Chen, D]]	+	[[Category: Chen D]]
-	[[Category: Jansson, A]]	+	[[Category: Jansson A]]
-	[[Category: Larsson, A]]	+	[[Category: Larsson A]]
-	[[Category: Nordlund, P]]	+	[[Category: Nordlund P]]
-	~~[[Category: Cytosolic protein]]~~	+
-	~~[[Category: Idh1]]~~	+
-	~~[[Category: Isocitrate]]~~	+
-	~~[[Category: Nadph regeneration]]~~	+
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 09:17, 21 October 2020

2020-10-21T09:17:49Z

←Older revision		Revision as of 09:17, 21 October 2020
Line 1:		Line 1:

	==Human isocitrate dehydrogenase 1 bound with NADP==		==Human isocitrate dehydrogenase 1 bound with NADP==
-	<StructureSection load='5yfm' size='340' side='right' caption='[[5yfm]], [[Resolution\|resolution]] 2.40Å' scene=''>	+	<StructureSection load='5yfm' size='340' side='right'caption='[[5yfm]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5yfm]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YFM OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5YFM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5yfm]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YFM OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5YFM FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Isocitrate_dehydrogenase_(NADP(+)) Isocitrate dehydrogenase (NADP(+))], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.42 1.1.1.42] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Isocitrate_dehydrogenase_(NADP(+)) Isocitrate dehydrogenase (NADP(+))], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.42 1.1.1.42] </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=5yfm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yfm OCA], [http://pdbe.org/5yfm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yfm RCSB], [http://www.ebi.ac.uk/pdbsum/5yfm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yfm 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=5yfm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yfm OCA], [http://pdbe.org/5yfm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yfm RCSB], [http://www.ebi.ac.uk/pdbsum/5yfm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yfm ProSAT]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==
	[[http://www.uniprot.org/uniprot/IDHC_HUMAN IDHC_HUMAN]] Defects in IDH1 are involved in the development of glioma (GLM) [MIM:[http://omim.org/entry/137800 137800]]. Gliomas are central nervous system neoplasms derived from glial cells and comprise astrocytomas, glioblastoma multiforme, oligodendrogliomas, and ependymomas. Note=Mutations affecting Arg-132 are tissue-specific, and suggest that this residue plays a unique role in the development of high-grade gliomas. Mutations of Arg-132 to Cys, His, Leu or Ser abolish magnesium binding and abolish the conversion of isocitrate to alpha-ketoglutarate. Instead, alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate. Elevated levels of R(-)-2-hydroxyglutarate are correlated with an elevated risk of malignant brain tumors.		[[http://www.uniprot.org/uniprot/IDHC_HUMAN IDHC_HUMAN]] Defects in IDH1 are involved in the development of glioma (GLM) [MIM:[http://omim.org/entry/137800 137800]]. Gliomas are central nervous system neoplasms derived from glial cells and comprise astrocytomas, glioblastoma multiforme, oligodendrogliomas, and ependymomas. Note=Mutations affecting Arg-132 are tissue-specific, and suggest that this residue plays a unique role in the development of high-grade gliomas. Mutations of Arg-132 to Cys, His, Leu or Ser abolish magnesium binding and abolish the conversion of isocitrate to alpha-ketoglutarate. Instead, alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate. Elevated levels of R(-)-2-hydroxyglutarate are correlated with an elevated risk of malignant brain tumors.
		+
		+	==See Also==
		+	*[[Isocitrate dehydrogenase 3D structures\|Isocitrate dehydrogenase 3D structures]]
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Chen, D]]		[[Category: Chen, D]]
	[[Category: Jansson, A]]		[[Category: Jansson, A]]

OCA at 07:20, 25 October 2017

2017-10-25T07:20:23Z

←Older revision		Revision as of 07:20, 25 October 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5yfm is ~~ON HOLD~~	+	==Human isocitrate dehydrogenase 1 bound with NADP==
-		+	<StructureSection load='5yfm' size='340' side='right' caption='[[5yfm]], [[Resolution\|resolution]] 2.40Å' scene=''>
-	~~Authors~~: ~~Nordlund~~, P., ~~Chen~~, D., ~~Jansson~~, A., ~~Larsson, A~~.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5yfm]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YFM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5YFM FirstGlance]. <br>
-	~~Description~~: ~~Human~~ isocitrate ~~dehydrogenase 1 bound~~ with ~~NADP~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Isocitrate_dehydrogenase_(NADP(+)) Isocitrate dehydrogenase (NADP(+))], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.42 1.1.1.42] </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=5yfm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yfm OCA], [http://pdbe.org/5yfm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yfm RCSB], [http://www.ebi.ac.uk/pdbsum/5yfm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yfm ProSAT]</span></td></tr>
		+	</table>
		+	== Disease ==
		+	[[http://www.uniprot.org/uniprot/IDHC_HUMAN IDHC_HUMAN]] Defects in IDH1 are involved in the development of glioma (GLM) [MIM:[http://omim.org/entry/137800 137800]]. Gliomas are central nervous system neoplasms derived from glial cells and comprise astrocytomas, glioblastoma multiforme, oligodendrogliomas, and ependymomas. Note=Mutations affecting Arg-132 are tissue-specific, and suggest that this residue plays a unique role in the development of high-grade gliomas. Mutations of Arg-132 to Cys, His, Leu or Ser abolish magnesium binding and abolish the conversion of isocitrate to alpha-ketoglutarate. Instead, alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate. Elevated levels of R(-)-2-hydroxyglutarate are correlated with an elevated risk of malignant brain tumors.
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Chen, D]]
		+	[[Category: Jansson, A]]
	[[Category: Larsson, A]]		[[Category: Larsson, A]]
	[[Category: Nordlund, P]]		[[Category: Nordlund, P]]
-	[[Category: ~~Jansson, A~~]]	+	[[Category: Cytosolic protein]]
-	[[Category: ~~Chen, D~~]]	+	[[Category: Idh1]]
		+	[[Category: Isocitrate]]
		+	[[Category: Nadph regeneration]]
		+	[[Category: Oxidoreductase]]

OCA: Protected "5yfm" [edit=sysop:move=sysop]

2017-09-27T16:31:00Z

Protected "5yfm" [edit=sysop:move=sysop]

←Older revision

Revision as of 16:31, 27 September 2017

OCA: New page: '''Unreleased structure''' The entry 5yfm is ON HOLD Authors: Nordlund, P., Chen, D., Jansson, A., Larsson, A. Description: Human isocitrate dehydrogenase 1 bound with NADP [[Category:...

2017-09-27T16:30:59Z

New page: '''Unreleased structure''' The entry 5yfm is ON HOLD Authors: Nordlund, P., Chen, D., Jansson, A., Larsson, A. Description: Human isocitrate dehydrogenase 1 bound with NADP [[Category:...

New page

'''Unreleased structure'''

The entry 5yfm is ON HOLD

Authors: Nordlund, P., Chen, D., Jansson, A., Larsson, A.

Description: Human isocitrate dehydrogenase 1 bound with NADP
[[Category: Unreleased Structures]]
[[Category: Larsson, A]]
[[Category: Nordlund, P]]
[[Category: Jansson, A]]
[[Category: Chen, D]]