8i4q - Revision history

OCA at 19:53, 29 May 2024

OCA — Wed, 29 May 2024 19:53:00 GMT

←Older revision		Revision as of 19:53, 29 May 2024
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	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
-	Corynebacterium glutamicum (C. glutamicum) has been considered a very important and meaningful industrial microorganism for the production of amino acids worldwide. To produce amino acids, cells require nicotinamide adenine dinucleotide phosphate (NADPH), which is a biological reducing agent. The pentose phosphate pathway (PPP) can supply NADPH in cells via the 6-phosphogluconate dehydrogenase (6PGD) enzyme, which is an oxidoreductase that converts 6-phosphogluconate (6PG) to ribulose 5-phosphate (Ru5P), to produce NADPH. In this study, we identified the crystal structure of 6PGD_apo and 6PGD_NADP from C. glutamicum ATCC 13032 (Cg6PGD) and reported our biological research based on this structure. We identified the substrate binding site and co-factor binding ~~sites~~ of Cg6PGD, which are crucial for understanding this enzyme. Based on the findings of our research, Cg6PGD is expected to be used as a NADPH resource in the food industry and as a drug target in the pharmaceutical industry.	+	Corynebacterium glutamicum (C. glutamicum) has been considered a very important and meaningful industrial microorganism for the production of amino acids worldwide. To produce amino acids, cells require nicotinamide adenine dinucleotide phosphate (NADPH), which is a biological reducing agent. The pentose phosphate pathway (PPP) can supply NADPH in cells via the 6-phosphogluconate dehydrogenase (6PGD) enzyme, which is an oxidoreductase that converts 6-phosphogluconate (6PG) to ribulose 5-phosphate (Ru5P), to produce NADPH. In this study, we identified the crystal structure of 6PGD_apo and 6PGD_NADP from C. glutamicum ATCC 13032 (Cg6PGD) and reported our biological research based on this structure. We identified the substrate binding site and co-factor binding site of Cg6PGD, which are crucial for understanding this enzyme. Based on the findings of our research, Cg6PGD is expected to be used as a NADPH resource in the food industry and as a drug target in the pharmaceutical industry.

-	Crystal Structures of 6-Phosphogluconate Dehydrogenase from Corynebacterium glutamicum.,Yu H, Hong J, Seok J, Seu YB, Kim IK, Kim KJ J Microbiol Biotechnol. 2023 ~~Jun 27~~;33(10):1-9. doi: 10.4014/jmb.2305.05002. PMID:37417004<ref>PMID:37417004</ref>	+	Crystal Structures of 6-Phosphogluconate Dehydrogenase from Corynebacterium glutamicum.,Yu H, Hong J, Seok J, Seu YB, Kim IK, Kim KJ J Microbiol Biotechnol. 2023 Oct 28;33(10):1361-1369. doi: , 10.4014/jmb.2305.05002. Epub 2023 Jun 27. PMID:37417004<ref>PMID:37417004</ref>

	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>

OCA at 12:39, 26 July 2023

OCA — Wed, 26 Jul 2023 12:39:54 GMT

←Older revision		Revision as of 12:39, 26 July 2023
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-	'''Unreleased structure'''

-	~~The entry~~ 8i4q is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of 6-phosphogluconate dehydrogenase from Corynebacterium glutamicum==
		+	<StructureSection load='8i4q' size='340' side='right'caption='[[8i4q]], [[Resolution\|resolution]] 1.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[8i4q]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Corynebacterium_glutamicum_ATCC_13032 Corynebacterium glutamicum ATCC 13032]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8I4Q OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8I4Q FirstGlance]. <br>
		+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.9Å</td></tr>
		+	<tr id='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>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></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=8i4q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8i4q OCA], [https://pdbe.org/8i4q PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8i4q RCSB], [https://www.ebi.ac.uk/pdbsum/8i4q PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8i4q ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q8NQI2_CORGL Q8NQI2_CORGL] Catalyzes the oxidative decarboxylation of 6-phosphogluconate to ribulose 5-phosphate and CO(2), with concomitant reduction of NADP to NADPH.[PIRNR:PIRNR000109]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Corynebacterium glutamicum (C. glutamicum) has been considered a very important and meaningful industrial microorganism for the production of amino acids worldwide. To produce amino acids, cells require nicotinamide adenine dinucleotide phosphate (NADPH), which is a biological reducing agent. The pentose phosphate pathway (PPP) can supply NADPH in cells via the 6-phosphogluconate dehydrogenase (6PGD) enzyme, which is an oxidoreductase that converts 6-phosphogluconate (6PG) to ribulose 5-phosphate (Ru5P), to produce NADPH. In this study, we identified the crystal structure of 6PGD_apo and 6PGD_NADP from C. glutamicum ATCC 13032 (Cg6PGD) and reported our biological research based on this structure. We identified the substrate binding site and co-factor binding sites of Cg6PGD, which are crucial for understanding this enzyme. Based on the findings of our research, Cg6PGD is expected to be used as a NADPH resource in the food industry and as a drug target in the pharmaceutical industry.

-	~~Authors: Yu~~, H., Kim, K.-J.	+	Crystal Structures of 6-Phosphogluconate Dehydrogenase from Corynebacterium glutamicum.,Yu H, Hong J, Seok J, Seu YB, Kim IK, Kim KJ J Microbiol Biotechnol. 2023 Jun 27;33(10):1-9. doi: 10.4014/jmb.2305.05002. PMID:37417004<ref>PMID:37417004</ref>

-	~~Description: Crystal structure~~ of 6-~~phosphogluconate dehydrogenase from Corynebacterium glutamicum~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: ~~Yu, H~~]]	+	<div class="pdbe-citations 8i4q" style="background-color:#fffaf0;"></div>
-	[[Category: Kim, K.-J]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Corynebacterium glutamicum ATCC 13032]]
		+	[[Category: Large Structures]]
		+	[[Category: Kim K-J]]
		+	[[Category: Yu H]]

OCA at 05:03, 10 May 2023

OCA — Wed, 10 May 2023 05:03:39 GMT

←Older revision		Revision as of 05:03, 10 May 2023
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 8i4q is ON HOLD	+	The entry 8i4q is ON HOLD until Paper Publication

	Authors: Yu, H., Kim, K.-J.		Authors: Yu, H., Kim, K.-J.

OCA: Protected "8i4q" [edit=sysop:move=sysop]

OCA — Wed, 25 Jan 2023 05:13:43 GMT

Protected "8i4q" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:13, 25 January 2023

OCA: New page: '''Unreleased structure''' The entry 8i4q is ON HOLD Authors: Yu, H., Kim, K.-J. Description: Crystal structure of 6-phosphogluconate dehydrogenase from Corynebacterium glutamicum [[Ca...

OCA — Wed, 25 Jan 2023 05:13:41 GMT

New page: '''Unreleased structure''' The entry 8i4q is ON HOLD Authors: Yu, H., Kim, K.-J. Description: Crystal structure of 6-phosphogluconate dehydrogenase from Corynebacterium glutamicum [[Ca...

New page

'''Unreleased structure'''

The entry 8i4q is ON HOLD

Authors: Yu, H., Kim, K.-J.

Description: Crystal structure of 6-phosphogluconate dehydrogenase from Corynebacterium glutamicum
[[Category: Unreleased Structures]]
[[Category: Yu, H]]
[[Category: Kim, K.-J]]