6p90 - Revision history

OCA at 07:25, 11 October 2023

2023-10-11T07:25:13Z

←Older revision		Revision as of 07:25, 11 October 2023
Line 3:		Line 3:
	<StructureSection load='6p90' size='340' side='right'caption='[[6p90]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='6p90' size='340' side='right'caption='[[6p90]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6p90]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillus_aeruginosus"_(schroeter_1872)_trevisan_1885 "bacillus aeruginosus" (schroeter 1872) trevisan 1885~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6P90 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6P90 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6p90]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6P90 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6P90 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=CL:CHLORIDE+ION'>CL</scene~~>, ~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</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='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>dapA, PA1010 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~287~~ "~~Bacillus aeruginosus~~" ~~(Schroeter 1872) Trevisan 1885])</td~~><~~/tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>[http://en.wikipedia.org/wiki/4-hydroxy-tetrahydrodipicolinate_synthase 4-hydroxy-tetrahydrodipicolinate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.3.3.7 4.3.3.7] </~~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=6p90 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6p90 OCA], [https://pdbe.org/6p90 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6p90 RCSB], [https://www.ebi.ac.uk/pdbsum/6p90 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6p90 ProSAT]</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=6p90 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6p90 OCA], [~~http~~://pdbe.org/6p90 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6p90 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6p90 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6p90 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/DAPA_PSEAE DAPA_PSEAE]] Catalyzes the condensation of (S)-aspartate-beta-semialdehyde [(S)-ASA] and pyruvate to 4-hydroxy-tetrahydrodipicolinate (HTPA).<ref>PMID:21396954</ref>	+	[https://www.uniprot.org/uniprot/DAPA_PSEAE DAPA_PSEAE] Catalyzes the condensation of (S)-aspartate-beta-semialdehyde [(S)-ASA] and pyruvate to 4-hydroxy-tetrahydrodipicolinate (HTPA).<ref>PMID:21396954</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 6p90" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6p90" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Dihydrodipicolinate synthase\|Dihydrodipicolinate synthase]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: 4-hydroxy-tetrahydrodipicolinate synthase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Bock, L J~~]]	+	[[Category: Pseudomonas aeruginosa]]
-	[[Category: ~~Costa, T P.Soares da~~]]	+	[[Category: Bock LJ]]
-	[[Category: Hall~~, C J~~]]	+	[[Category: Hall CJ]]
-	[[Category: Impey~~, R E~~]]	+	[[Category: Impey RE]]
-	[[Category: Panjikar, S]]	+	[[Category: Panjikar S]]
-	[[Category: Perugini~~, M A~~]]	+	[[Category: Perugini MA]]
-	[[Category: ~~Sutton, J M~~]]	+	[[Category: Soares da Costa TP]]
-	[[Category: ~~Allosteric regulation]]~~	+	[[Category: Sutton JM]]
-	~~[[Category: Antibiotic resistance]]~~	+
-	~~[[Category: Diaminopimelate]]~~	+
-	~~[[Category: Lysine biosynthesis]]~~	+
-	~~[[Category: Structural protein~~]]	+

OCA at 12:03, 1 January 2020

2020-01-01T12:03:56Z

←Older revision		Revision as of 12:03, 1 January 2020
Line 3:		Line 3:
	<StructureSection load='6p90' size='340' side='right'caption='[[6p90]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='6p90' size='340' side='right'caption='[[6p90]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6p90]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6P90 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6P90 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6p90]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_aeruginosus"_(schroeter_1872)_trevisan_1885 "bacillus aeruginosus" (schroeter 1872) trevisan 1885]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6P90 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6P90 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">dapA, PA1010 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=287 "Bacillus aeruginosus" (Schroeter 1872) Trevisan 1885])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/4-hydroxy-tetrahydrodipicolinate_synthase 4-hydroxy-tetrahydrodipicolinate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.3.3.7 4.3.3.7] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/4-hydroxy-tetrahydrodipicolinate_synthase 4-hydroxy-tetrahydrodipicolinate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.3.3.7 4.3.3.7] </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=6p90 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6p90 OCA], [http://pdbe.org/6p90 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6p90 RCSB], [http://www.ebi.ac.uk/pdbsum/6p90 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6p90 ProSAT]</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=6p90 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6p90 OCA], [http://pdbe.org/6p90 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6p90 RCSB], [http://www.ebi.ac.uk/pdbsum/6p90 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6p90 ProSAT]</span></td></tr>

OCA at 06:00, 7 August 2019

2019-08-07T06:00:16Z

←Older revision		Revision as of 06:00, 7 August 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6p90 is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Crystal structure of PaDHDPS2-H56Q mutant==
		+	<StructureSection load='6p90' size='340' side='right'caption='[[6p90]], [[Resolution\|resolution]] 1.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6p90]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6P90 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6P90 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/4-hydroxy-tetrahydrodipicolinate_synthase 4-hydroxy-tetrahydrodipicolinate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.3.3.7 4.3.3.7] </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=6p90 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6p90 OCA], [http://pdbe.org/6p90 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6p90 RCSB], [http://www.ebi.ac.uk/pdbsum/6p90 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6p90 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/DAPA_PSEAE DAPA_PSEAE]] Catalyzes the condensation of (S)-aspartate-beta-semialdehyde [(S)-ASA] and pyruvate to 4-hydroxy-tetrahydrodipicolinate (HTPA).<ref>PMID:21396954</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Pseudomonas aeruginosa is one of the leading causes of nosocomial infections, accounting for 10% of all hospital-acquired infections. Current antibiotics against P. aeruginosa are becoming increasingly ineffective due to the exponential rise in drug resistance. Thus, there is an urgent need to validate and characterize novel drug targets to guide the development of new classes of antibiotics against this pathogen. One such target is the diaminopimelate (DAP) pathway, which is responsible for the biosynthesis of bacterial cell wall and protein building blocks, namely meso-DAP and lysine. The rate-limiting step of this pathway is catalysed by the enzyme dihydrodipicolinate synthase (DHDPS), typically encoded for in bacteria by a single dapA gene. Here, we show that P. aeruginosa encodes two functional DHDPS enzymes, PaDHDPS1 and PaDHDPS2. Although these isoforms have similar catalytic activities (kcat = 29 s(-1) and 44 s(-1) for PaDHDPS1 and PaDHDPS2, respectively), they are differentially allosterically regulated by lysine, with only PaDHDPS2 showing inhibition by the end product of the DAP pathway (IC50 = 130 mum). The differences in allostery are attributed to a single amino acid difference in the allosteric binding pocket at position 56. This is the first example of a bacterium that contains multiple bona fide DHDPS enzymes, which differ in allosteric regulation. We speculate that the presence of the two isoforms allows an increase in the metabolic flux through the DAP pathway when required in this clinically important pathogen. DATABASES: PDB ID: 6P90.

-	~~Authors:~~ Impey~~, R.E.~~, Panjikar, S., Hall~~, C.J.~~, Bock~~, L.J.~~, Sutton~~, J.M.~~, Perugini~~, M.A.~~, Soares da Costa~~, T~~.P.	+	Identification of two dihydrodipicolinate synthase isoforms from Pseudomonas aeruginosa that differ in allosteric regulation.,Impey RE, Panjikar S, Hall CJ, Bock LJ, Sutton JM, Perugini MA, Soares da Costa TP FEBS J. 2019 Jul 22. doi: 10.1111/febs.15014. PMID:31330085<ref>PMID:31330085</ref>

-	~~Description: Crystal structure~~ of ~~PaDHDPS2~~-~~H56Q mutant~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
-	[[Category: ~~Sutton~~, J.M]]	+	<div class="pdbe-citations 6p90" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: 4-hydroxy-tetrahydrodipicolinate synthase]]
		+	[[Category: Large Structures]]
		+	[[Category: Bock, L J]]
		+	[[Category: Costa, T P.Soares da]]
		+	[[Category: Hall, C J]]
		+	[[Category: Impey, R E]]
	[[Category: Panjikar, S]]		[[Category: Panjikar, S]]
-	[[Category: ~~Bock~~, ~~L.J~~]]	+	[[Category: Perugini, M A]]
-	[[Category: ~~Impey~~, ~~R.E~~]]	+	[[Category: Sutton, J M]]
-	[[Category: ~~Soares Da Costa, T.P~~]]	+	[[Category: Allosteric regulation]]
-	[[Category: ~~Perugini, M.A~~]]	+	[[Category: Antibiotic resistance]]
-	[[Category: ~~Hall, C.J~~]]	+	[[Category: Diaminopimelate]]
		+	[[Category: Lysine biosynthesis]]
		+	[[Category: Structural protein]]

OCA at 04:11, 3 July 2019

2019-07-03T04:11:14Z

←Older revision		Revision as of 04:11, 3 July 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6p90 is ON HOLD	+	The entry 6p90 is ON HOLD until Paper Publication

	Authors: Impey, R.E., Panjikar, S., Hall, C.J., Bock, L.J., Sutton, J.M., Perugini, M.A., Soares da Costa, T.P.		Authors: Impey, R.E., Panjikar, S., Hall, C.J., Bock, L.J., Sutton, J.M., Perugini, M.A., Soares da Costa, T.P.

OCA: Protected "6p90" [edit=sysop:move=sysop]

2019-06-19T04:17:40Z

Protected "6p90" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:17, 19 June 2019

OCA: New page: '''Unreleased structure''' The entry 6p90 is ON HOLD Authors: Impey, R.E., Panjikar, S., Hall, C.J., Bock, L.J., Sutton, J.M., Perugini, M.A., Soares da Costa, T.P. Description: Crysta...

2019-06-19T04:17:39Z

New page: '''Unreleased structure''' The entry 6p90 is ON HOLD Authors: Impey, R.E., Panjikar, S., Hall, C.J., Bock, L.J., Sutton, J.M., Perugini, M.A., Soares da Costa, T.P. Description: Crysta...

New page

'''Unreleased structure'''

The entry 6p90 is ON HOLD

Authors: Impey, R.E., Panjikar, S., Hall, C.J., Bock, L.J., Sutton, J.M., Perugini, M.A., Soares da Costa, T.P.

Description: Crystal structure of PaDHDPS2-H56Q mutant
[[Category: Unreleased Structures]]
[[Category: Sutton, J.M]]
[[Category: Panjikar, S]]
[[Category: Bock, L.J]]
[[Category: Impey, R.E]]
[[Category: Soares Da Costa, T.P]]
[[Category: Perugini, M.A]]
[[Category: Hall, C.J]]