5zjp - Revision history

OCA at 10:28, 27 March 2024

OCA — Wed, 27 Mar 2024 10:28:03 GMT

←Older revision		Revision as of 10:28, 27 March 2024
Line 3:		Line 3:
	<StructureSection load='5zjp' size='340' side='right'caption='[[5zjp]], [[Resolution\|resolution]] 2.66Å' scene=''>		<StructureSection load='5zjp' size='340' side='right'caption='[[5zjp]], [[Resolution\|resolution]] 2.66Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5zjp]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZJP OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5ZJP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5zjp]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Vibrio_cholerae Vibrio cholerae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZJP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5ZJP FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene>, <scene name='pdbligand=RFW:N-ACETYL-D-GLUCOSAMINE-6-PHOSPHATE'>RFW</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]] 2.66Å</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/N-acylglucosamine-6-phosphate_2-epimerase N-acylglucosamine-6-phosphate 2-epimerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.3.9 5.1.3.9] </span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene>, <scene name='pdbligand=RFW:N-ACETYL-D-GLUCOSAMINE-6-PHOSPHATE'>RFW</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=5zjp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zjp OCA], [~~http~~://pdbe.org/5zjp PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5zjp RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5zjp PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5zjp 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=5zjp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zjp OCA], [https://pdbe.org/5zjp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5zjp RCSB], [https://www.ebi.ac.uk/pdbsum/5zjp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5zjp ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~A0A2K2UT85_VIBCL A0A2K2UT85_VIBCL]~~] Converts N-acetylmannosamine-6-phosphate (ManNAc-6-P) to N-acetylglucosamine-6-phosphate (GlcNAc-6-P).[HAMAP-Rule:MF_01235]~~[SAAS:SAAS00761217]~~	+	[https://www.uniprot.org/uniprot/NANE_VIBCH NANE_VIBCH] Converts N-acetylmannosamine-6-phosphate (ManNAc-6-P) to N-acetylglucosamine-6-phosphate (GlcNAc-6-P).[HAMAP-Rule:MF_01235]
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	Sialic acids are nine-carbon sugars that are found abundantly on the cell surfaces of mammals as glycoprotein or glycolipid complexes. Several Gram-negative and Gram-positive bacteria have the ability to scavenge and catabolize sialic acids to use as a carbon source. This gives them an advantage in colonizing sialic acid-rich environments. The genes of the sialic acid catabolic pathway are generally present as the operon nanAKE. The third gene in the operon encodes the enzyme N-acetylmannosamine-6-phosphate 2-epimerase (NanE), which catalyzes the conversion of N-acetylmannosamine 6-phosphate to N-acetylglucosamine 6-phosphate, thus committing it to enter glycolysis. The NanE enzyme belongs to the isomerase class of enzymes possessing the triose phosphate isomerase (TIM) barrel fold. Here, comparative structural and functional characterizations of the NanE epimerases from two pathogenic Gram-negative bacteria, Fusobacterium nucleatum (Fn) and Vibrio cholerae (Vc), have been carried out. Structures of NanE from Vc (VcNanE) with and without ligand bound have been determined to 1.7 and 2.7 A resolution, respectively. The structure of NanE from Fn (FnNanE) has been determined to 2.2 A resolution. The enzymes show kinetic parameters that are consistent with those of Clostridium perfringens NanE. These studies allowed an evaluation of whether NanE may be a good drug target against these pathogenic bacteria.	+
-		+
-	Crystal structures and kinetic analyses of N-acetylmannosamine-6-phosphate 2-epimerases from Fusobacterium nucleatum and Vibrio cholerae.,Manjunath L, Guntupalli SR, Currie MJ, North RA, Dobson RCJ, Nayak V, Subramanian R Acta Crystallogr F Struct Biol Commun. 2018 Jul 1;74(Pt 7):431-440. doi:, 10.1107/S2053230X18008543. Epub 2018 Jun 28. PMID:29969107<ref>PMID:29969107</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 5zjp" style="background-color:#fffaf0;"></div>~~	+
-	~~== References ==~~	+
-	~~<references/>~~	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~N-acylglucosamine-6-phosphate 2-epimerase~~]]	+	[[Category: Vibrio cholerae]]
-	[[Category: Guntupalli~~, S R~~]]	+	[[Category: Guntupalli SR]]
-	[[Category: Manjunath, L]]	+	[[Category: Manjunath L]]
-	~~[[Category: Isomerase]]~~	+
-	~~[[Category: Sialic acid catabolism pathway~~]]	+

OCA at 21:20, 28 October 2020

OCA — Wed, 28 Oct 2020 21:20:40 GMT

←Older revision		Revision as of 21:20, 28 October 2020
Line 1:		Line 1:

	==Structure of N-acetylmannosamine-6-phosphate-2-epimerase from Vibrio cholerae with N-acetylglucosamine-6-phosphate==		==Structure of N-acetylmannosamine-6-phosphate-2-epimerase from Vibrio cholerae with N-acetylglucosamine-6-phosphate==
-	<StructureSection load='5zjp' size='340' side='right' caption='[[5zjp]], [[Resolution\|resolution]] 2.66Å' scene=''>	+	<StructureSection load='5zjp' size='340' side='right'caption='[[5zjp]], [[Resolution\|resolution]] 2.66Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5zjp]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZJP OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5ZJP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5zjp]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZJP OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5ZJP FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene>, <scene name='pdbligand=RFW:N-ACETYL-D-GLUCOSAMINE-6-PHOSPHATE'>RFW</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene>, <scene name='pdbligand=RFW:N-ACETYL-D-GLUCOSAMINE-6-PHOSPHATE'>RFW</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/N-acylglucosamine-6-phosphate_2-epimerase N-acylglucosamine-6-phosphate 2-epimerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.3.9 5.1.3.9] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/N-acylglucosamine-6-phosphate_2-epimerase N-acylglucosamine-6-phosphate 2-epimerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.3.9 5.1.3.9] </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=5zjp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zjp OCA], [http://pdbe.org/5zjp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zjp RCSB], [http://www.ebi.ac.uk/pdbsum/5zjp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zjp 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=5zjp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zjp OCA], [http://pdbe.org/5zjp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zjp RCSB], [http://www.ebi.ac.uk/pdbsum/5zjp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zjp ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 23:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: N-acylglucosamine-6-phosphate 2-epimerase]]		[[Category: N-acylglucosamine-6-phosphate 2-epimerase]]
	[[Category: Guntupalli, S R]]		[[Category: Guntupalli, S R]]

OCA at 06:30, 5 December 2018

OCA — Wed, 05 Dec 2018 06:30:51 GMT

←Older revision		Revision as of 06:30, 5 December 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5zjp is ~~ON HOLD until Paper~~ Publication	+	==Structure of N-acetylmannosamine-6-phosphate-2-epimerase from Vibrio cholerae with N-acetylglucosamine-6-phosphate==
		+	<StructureSection load='5zjp' size='340' side='right' caption='[[5zjp]], [[Resolution\|resolution]] 2.66Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5zjp]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZJP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ZJP FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene>, <scene name='pdbligand=RFW:N-ACETYL-D-GLUCOSAMINE-6-PHOSPHATE'>RFW</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/N-acylglucosamine-6-phosphate_2-epimerase N-acylglucosamine-6-phosphate 2-epimerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.3.9 5.1.3.9] </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=5zjp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zjp OCA], [http://pdbe.org/5zjp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zjp RCSB], [http://www.ebi.ac.uk/pdbsum/5zjp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zjp ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/A0A2K2UT85_VIBCL A0A2K2UT85_VIBCL]] Converts N-acetylmannosamine-6-phosphate (ManNAc-6-P) to N-acetylglucosamine-6-phosphate (GlcNAc-6-P).[HAMAP-Rule:MF_01235][SAAS:SAAS00761217]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Sialic acids are nine-carbon sugars that are found abundantly on the cell surfaces of mammals as glycoprotein or glycolipid complexes. Several Gram-negative and Gram-positive bacteria have the ability to scavenge and catabolize sialic acids to use as a carbon source. This gives them an advantage in colonizing sialic acid-rich environments. The genes of the sialic acid catabolic pathway are generally present as the operon nanAKE. The third gene in the operon encodes the enzyme N-acetylmannosamine-6-phosphate 2-epimerase (NanE), which catalyzes the conversion of N-acetylmannosamine 6-phosphate to N-acetylglucosamine 6-phosphate, thus committing it to enter glycolysis. The NanE enzyme belongs to the isomerase class of enzymes possessing the triose phosphate isomerase (TIM) barrel fold. Here, comparative structural and functional characterizations of the NanE epimerases from two pathogenic Gram-negative bacteria, Fusobacterium nucleatum (Fn) and Vibrio cholerae (Vc), have been carried out. Structures of NanE from Vc (VcNanE) with and without ligand bound have been determined to 1.7 and 2.7 A resolution, respectively. The structure of NanE from Fn (FnNanE) has been determined to 2.2 A resolution. The enzymes show kinetic parameters that are consistent with those of Clostridium perfringens NanE. These studies allowed an evaluation of whether NanE may be a good drug target against these pathogenic bacteria.

-	~~Authors~~:	+	Crystal structures and kinetic analyses of N-acetylmannosamine-6-phosphate 2-epimerases from Fusobacterium nucleatum and Vibrio cholerae.,Manjunath L, Guntupalli SR, Currie MJ, North RA, Dobson RCJ, Nayak V, Subramanian R Acta Crystallogr F Struct Biol Commun. 2018 Jul 1;74(Pt 7):431-440. doi:, 10.1107/S2053230X18008543. Epub 2018 Jun 28. PMID:29969107<ref>PMID:29969107</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5zjp" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: N-acylglucosamine-6-phosphate 2-epimerase]]
		+	[[Category: Guntupalli, S R]]
		+	[[Category: Manjunath, L]]
		+	[[Category: Isomerase]]
		+	[[Category: Sialic acid catabolism pathway]]

OCA at 17:59, 19 September 2018

OCA — Wed, 19 Sep 2018 17:59:16 GMT

←Older revision		Revision as of 17:59, 19 September 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5zjp is ON HOLD	+	The entry 5zjp is ON HOLD until Paper Publication

	Authors:		Authors:

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

OCA — Wed, 28 Mar 2018 05:12:32 GMT

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

←Older revision

Revision as of 05:12, 28 March 2018

OCA: New page: '''Unreleased structure''' The entry 5zjp is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 28 Mar 2018 05:12:31 GMT

New page: '''Unreleased structure''' The entry 5zjp is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5zjp is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]