6jt8 - Revision history

OCA at 10:19, 22 November 2023

2023-11-22T10:19:18Z

←Older revision		Revision as of 10:19, 22 November 2023
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	<StructureSection load='6jt8' size='340' side='right'caption='[[6jt8]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='6jt8' size='340' side='right'caption='[[6jt8]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6jt8]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillus_typhimurium"_loeffler_1892 "bacillus typhimurium" loeffler 1892~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JT8 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6JT8 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6jt8]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_Typhimurium Salmonella enterica subsp. enterica serovar Typhimurium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JT8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6JT8 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ADP:ADENOSINE~~-~~5-DIPHOSPHATE'>ADP</scene>~~, ~~<scene name='pdbligand=EDO:~~1~~,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.9Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=CYG:2-AMINO-4-(AMINO-3-OXO-PROPYLSULFANYLCARBONYL)-BUTYRIC+ACID'>CYG</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=CYG:2-AMINO-4-(AMINO-3-OXO-PROPYLSULFANYLCARBONYL)-BUTYRIC+ACID'>CYG</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td><~~td class~~=~~"sblockDat">purL, C2273_06610, DD95_10355 ([http~~:~~//www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=90371 "Bacillus typhimurium" Loeffler 1892])</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=6jt8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jt8 OCA], [https://pdbe.org/6jt8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6jt8 RCSB], [https://www.ebi.ac.uk/pdbsum/6jt8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6jt8 ProSAT]</span></td></tr>
-	<~~tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>[http://en.wikipedia.org/wiki/Phosphoribosylformylglycinamidine_synthase Phosphoribosylformylglycinamidine synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.5.3 6.3.5.3] </~~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=6jt8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jt8 OCA], [~~http~~://pdbe.org/6jt8 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6jt8 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6jt8 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6jt8 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/A0A0D6F9Y3_SALTM A0A0D6F9Y3_SALTM]] Phosphoribosylformylglycinamidine synthase involved in the purines biosynthetic pathway. Catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to yield formylglycinamidine ribonucleotide (FGAM) and glutamate.[HAMAP-Rule:MF_00419][SAAS:SAAS01200885]	+	[https://www.uniprot.org/uniprot/PUR4_SALTY PUR4_SALTY]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Bacillus typhimurium loeffler 1892]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Phosphoribosylformylglycinamidine synthase~~]]	+	[[Category: Salmonella enterica subsp. enterica serovar Typhimurium]]
-	[[Category: Ahalawat, N]]	+	[[Category: Ahalawat N]]
-	[[Category: Anand, R]]	+	[[Category: Anand R]]
-	[[Category: Mondal, J]]	+	[[Category: Mondal J]]
-	[[Category: Sandhu, P]]	+	[[Category: Sandhu P]]
-	[[Category: Sharma, N]]	+	[[Category: Sharma N]]
-	~~[[Category: Biosynthetic protein]]~~	+
-	~~[[Category: Fgam synthetase~~]]	+

OCA at 07:10, 27 May 2020

2020-05-27T07:10:22Z

←Older revision		Revision as of 07:10, 27 May 2020
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	<StructureSection load='6jt8' size='340' side='right'caption='[[6jt8]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='6jt8' size='340' side='right'caption='[[6jt8]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6jt8]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JT8 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6JT8 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6jt8]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_typhimurium"_loeffler_1892 "bacillus typhimurium" loeffler 1892]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JT8 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6JT8 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CYG:2-AMINO-4-(AMINO-3-OXO-PROPYLSULFANYLCARBONYL)-BUTYRIC+ACID'>CYG</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CYG:2-AMINO-4-(AMINO-3-OXO-PROPYLSULFANYLCARBONYL)-BUTYRIC+ACID'>CYG</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">purL, C2273_06610, DD95_10355 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=90371 "Bacillus typhimurium" Loeffler 1892])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phosphoribosylformylglycinamidine_synthase Phosphoribosylformylglycinamidine synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.5.3 6.3.5.3] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phosphoribosylformylglycinamidine_synthase Phosphoribosylformylglycinamidine synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.5.3 6.3.5.3] </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=6jt8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jt8 OCA], [http://pdbe.org/6jt8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6jt8 RCSB], [http://www.ebi.ac.uk/pdbsum/6jt8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6jt8 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=6jt8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jt8 OCA], [http://pdbe.org/6jt8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6jt8 RCSB], [http://www.ebi.ac.uk/pdbsum/6jt8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6jt8 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/A0A0D6F9Y3_SALTM A0A0D6F9Y3_SALTM]] Phosphoribosylformylglycinamidine synthase involved in the purines biosynthetic pathway. Catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to yield formylglycinamidine ribonucleotide (FGAM) and glutamate.[HAMAP-Rule:MF_00419][SAAS:SAAS01200885]		[[http://www.uniprot.org/uniprot/A0A0D6F9Y3_SALTM A0A0D6F9Y3_SALTM]] Phosphoribosylformylglycinamidine synthase involved in the purines biosynthetic pathway. Catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to yield formylglycinamidine ribonucleotide (FGAM) and glutamate.[HAMAP-Rule:MF_00419][SAAS:SAAS01200885]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Transient tunnels that assemble and disassemble to facilitate passage of unstable intermediates in enzymes containing multiple reaction centers are controlled by allosteric cues. Using the 140-kDa purine biosynthetic enzyme PurL as a model system and a combination of biochemical and x-ray crystallographic studies, we show that long-distance communication between ~25-A distal active sites is initiated by an allosteric switch, residing in a conserved catalytic loop, adjacent to the synthetase active site. Further, combinatory experiments seeded from molecular dynamics simulations help to delineate transient states that bring out the central role of nonfunctional adaptor domains. We show that carefully orchestrated conformational changes, facilitated by interplay of dynamic interactions at the allosteric switch and adaptor-domain interface, control reactivity and concomitant formation of the ammonia tunnel. This study asserts that substrate channeling is modulated by allosteric hotspots that alter protein energy landscape, thereby allowing the protein to adopt transient conformations paramount to function.
		+
		+	Role of allosteric switches and adaptor domains in long-distance cross-talk and transient tunnel formation.,Sharma N, Ahalawat N, Sandhu P, Strauss E, Mondal J, Anand R Sci Adv. 2020 Apr 3;6(14):eaay7919. doi: 10.1126/sciadv.aay7919. eCollection 2020, Apr. PMID:32284973<ref>PMID:32284973</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6jt8" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus typhimurium loeffler 1892]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Phosphoribosylformylglycinamidine synthase]]		[[Category: Phosphoribosylformylglycinamidine synthase]]

OCA at 06:39, 4 March 2020

2020-03-04T06:39:33Z

←Older revision		Revision as of 06:39, 4 March 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6jt8 ~~is ON HOLD until Paper Publication~~	+	==Crystal structure of 450-451_deletion mutant of FGAM Synthetase==
-		+	<StructureSection load='6jt8' size='340' side='right'caption='[[6jt8]], [[Resolution\|resolution]] 1.90Å' scene=''>
-	~~Authors~~: ~~Sharma, N~~., ~~Ahalawat~~, N., ~~Sandhu~~, P., ~~Mondal~~, J., ~~Anand~~, R.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6jt8]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JT8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6JT8 FirstGlance]. <br>
-	~~Description~~: ~~Crystal structure of 450~~-~~451_deletion mutant~~ of FGAM ~~Synthetase~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CYG:2-AMINO-4-(AMINO-3-OXO-PROPYLSULFANYLCARBONYL)-BUTYRIC+ACID'>CYG</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phosphoribosylformylglycinamidine_synthase Phosphoribosylformylglycinamidine synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.5.3 6.3.5.3] </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=6jt8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jt8 OCA], [http://pdbe.org/6jt8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6jt8 RCSB], [http://www.ebi.ac.uk/pdbsum/6jt8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6jt8 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/A0A0D6F9Y3_SALTM A0A0D6F9Y3_SALTM]] Phosphoribosylformylglycinamidine synthase involved in the purines biosynthetic pathway. Catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to yield formylglycinamidine ribonucleotide (FGAM) and glutamate.[HAMAP-Rule:MF_00419][SAAS:SAAS01200885]
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Phosphoribosylformylglycinamidine synthase]]
		+	[[Category: Ahalawat, N]]
		+	[[Category: Anand, R]]
		+	[[Category: Mondal, J]]
	[[Category: Sandhu, P]]		[[Category: Sandhu, P]]
	[[Category: Sharma, N]]		[[Category: Sharma, N]]
-	[[Category: ~~Mondal, J~~]]	+	[[Category: Biosynthetic protein]]
-	[[Category: ~~Anand, R]]~~	+	[[Category: Fgam synthetase]]
-	~~[[Category: Ahalawat, N~~]]	+

OCA at 06:54, 1 May 2019

2019-05-01T06:54:52Z

←Older revision		Revision as of 06:54, 1 May 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6jt8 is ON HOLD	+	The entry 6jt8 is ON HOLD until Paper Publication

	Authors: Sharma, N., Ahalawat, N., Sandhu, P., Mondal, J., Anand, R.		Authors: Sharma, N., Ahalawat, N., Sandhu, P., Mondal, J., Anand, R.
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	Description: Crystal structure of 450-451_deletion mutant of FGAM Synthetase		Description: Crystal structure of 450-451_deletion mutant of FGAM Synthetase
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
		+	[[Category: Sandhu, P]]
	[[Category: Sharma, N]]		[[Category: Sharma, N]]
	[[Category: Mondal, J]]		[[Category: Mondal, J]]
-	[[Category: Sandhu, P]]
	[[Category: Anand, R]]		[[Category: Anand, R]]
	[[Category: Ahalawat, N]]		[[Category: Ahalawat, N]]

OCA: Protected "6jt8" [edit=sysop:move=sysop]

2019-04-17T04:03:06Z

Protected "6jt8" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:03, 17 April 2019

OCA: New page: '''Unreleased structure''' The entry 6jt8 is ON HOLD Authors: Sharma, N., Ahalawat, N., Sandhu, P., Mondal, J., Anand, R. Description: Crystal structure of 450-451_deletion mutant of F...

2019-04-17T04:03:05Z

New page: '''Unreleased structure''' The entry 6jt8 is ON HOLD Authors: Sharma, N., Ahalawat, N., Sandhu, P., Mondal, J., Anand, R. Description: Crystal structure of 450-451_deletion mutant of F...

New page

'''Unreleased structure'''

The entry 6jt8 is ON HOLD

Authors: Sharma, N., Ahalawat, N., Sandhu, P., Mondal, J., Anand, R.

Description: Crystal structure of 450-451_deletion mutant of FGAM Synthetase
[[Category: Unreleased Structures]]
[[Category: Sharma, N]]
[[Category: Mondal, J]]
[[Category: Sandhu, P]]
[[Category: Anand, R]]
[[Category: Ahalawat, N]]