6ue0 - Revision history

OCA at 07:49, 11 October 2023

OCA — Wed, 11 Oct 2023 07:49:35 GMT

←Older revision		Revision as of 07:49, 11 October 2023
Line 3:		Line 3:
	<StructureSection load='6ue0' size='340' side='right'caption='[[6ue0]], [[Resolution\|resolution]] 1.89Å' scene=''>		<StructureSection load='6ue0' size='340' side='right'caption='[[6ue0]], [[Resolution\|resolution]] 1.89Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ue0]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillus_pneumoniae"_(schroeter_1886)_flugge_1886 "bacillus~~ pneumoniae~~" (schroeter 1886) flugge 1886~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UE0 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6UE0 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ue0]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Klebsiella_pneumoniae Klebsiella pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UE0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6UE0 FirstGlance]. <br>
-	</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=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]] 1.892Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=KPI:(2S)-2-AMINO-6-[(1-HYDROXY-1-OXO-PROPAN-2-YLIDENE)AMINO]HEXANOIC+ACID'>KPI</scene>~~</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=KPI:(2S)-2-AMINO-6-[(1-HYDROXY-1-OXO-PROPAN-2-YLIDENE)AMINO]HEXANOIC+ACID'>KPI</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">dapA_2~~, ~~dapA_3, dapA_4, dapA_5, dapA_6, dapA_7 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=573 "Bacillus pneumoniae" (Schroeter 1886) Flugge 1886])~~<~~/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=6ue0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ue0 OCA], [https://pdbe.org/6ue0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ue0 RCSB], [https://www.ebi.ac.uk/pdbsum/6ue0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ue0 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/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~~://proteopedia.org/fgij/fg.htm?mol=6ue0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ue0 OCA], [~~http~~://pdbe.org/6ue0 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6ue0 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6ue0 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6ue0 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/W9BBZ5_KLEPN W9BBZ5_KLEPN]] Catalyzes the condensation of (S)-aspartate-beta-semialdehyde [(S)-ASA] and pyruvate to 4-hydroxy-tetrahydrodipicolinate (HTPA).[HAMAP-Rule:MF_00418][SAAS:SAAS00570606]	+	[https://www.uniprot.org/uniprot/W9BBZ5_KLEPN W9BBZ5_KLEPN] Catalyzes the condensation of (S)-aspartate-beta-semialdehyde [(S)-ASA] and pyruvate to 4-hydroxy-tetrahydrodipicolinate (HTPA).[HAMAP-Rule:MF_00418][SAAS:SAAS00570606]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 6ue0" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6ue0" 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: Klebsiella pneumoniae]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Costa, T P.Soares da]]~~	+	[[Category: Hawkins DA]]
-	[[Category: Hawkins~~, D A~~]]	+	[[Category: Impey RE]]
-	[[Category: Impey~~, R E~~]]	+	[[Category: Lee M]]
-	[[Category: Lee, M]]	+	[[Category: Panjikar S]]
-	[[Category: Panjikar, S]]	+	[[Category: Perugini MA]]
-	[[Category: Perugini~~, M A~~]]	+	[[Category: Soares da Costa TP]]
-	[[Category: ~~Sutton, J M~~]]	+	[[Category: Sutton JM]]
-	[[Category: ~~Dhdp]]~~	+
-	~~[[Category: Lyase]]~~	+
-	~~[[Category: Lysine biosynthesis]]~~	+
-	~~[[Category: Tetramer~~]]	+

OCA at 07:33, 27 May 2020

OCA — Wed, 27 May 2020 07:33:15 GMT

←Older revision		Revision as of 07:33, 27 May 2020
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	<StructureSection load='6ue0' size='340' side='right'caption='[[6ue0]], [[Resolution\|resolution]] 1.89Å' scene=''>		<StructureSection load='6ue0' size='340' side='right'caption='[[6ue0]], [[Resolution\|resolution]] 1.89Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ue0]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UE0 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6UE0 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ue0]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_pneumoniae"_(schroeter_1886)_flugge_1886 "bacillus pneumoniae" (schroeter 1886) flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UE0 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6UE0 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=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=CL:CHLORIDE+ION'>CL</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=KPI:(2S)-2-AMINO-6-[(1-HYDROXY-1-OXO-PROPAN-2-YLIDENE)AMINO]HEXANOIC+ACID'>KPI</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=KPI:(2S)-2-AMINO-6-[(1-HYDROXY-1-OXO-PROPAN-2-YLIDENE)AMINO]HEXANOIC+ACID'>KPI</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">dapA_2, dapA_3, dapA_4, dapA_5, dapA_6, dapA_7 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=573 "Bacillus pneumoniae" (Schroeter 1886) Flugge 1886])</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=6ue0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ue0 OCA], [http://pdbe.org/6ue0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ue0 RCSB], [http://www.ebi.ac.uk/pdbsum/6ue0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ue0 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=6ue0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ue0 OCA], [http://pdbe.org/6ue0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ue0 RCSB], [http://www.ebi.ac.uk/pdbsum/6ue0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ue0 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 08:12, 5 February 2020

OCA — Wed, 05 Feb 2020 08:12:01 GMT

←Older revision		Revision as of 08:12, 5 February 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6ue0 is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of dihydrodipicolinate synthase from Klebsiella pneumoniae bound to pyruvate==
		+	<StructureSection load='6ue0' size='340' side='right'caption='[[6ue0]], [[Resolution\|resolution]] 1.89Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6ue0]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UE0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6UE0 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=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=KPI:(2S)-2-AMINO-6-[(1-HYDROXY-1-OXO-PROPAN-2-YLIDENE)AMINO]HEXANOIC+ACID'>KPI</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=6ue0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ue0 OCA], [http://pdbe.org/6ue0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ue0 RCSB], [http://www.ebi.ac.uk/pdbsum/6ue0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ue0 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/W9BBZ5_KLEPN W9BBZ5_KLEPN]] Catalyzes the condensation of (S)-aspartate-beta-semialdehyde [(S)-ASA] and pyruvate to 4-hydroxy-tetrahydrodipicolinate (HTPA).[HAMAP-Rule:MF_00418][SAAS:SAAS00570606]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The rise of antibiotic resistance combined with the lack of new products entering the market has led to bacterial infections becoming one of the biggest threats to global health. Therefore, there is an urgent need to identify novel antibiotic targets, such as dihydrodipicolinate synthase (DHDPS), an enzyme involved in the production of essential metabolites in cell wall and protein synthesis. Here, we utilised a 7-residue sequence motif to identify mis-annotation of multiple DHDPS genes in the high-priority Gram-negative bacteria Acinetobacter baumannii and Klebsiella pneumoniae. We subsequently confirmed these mis-annotations using a combination of enzyme kinetics and X-ray crystallography. Thus, this study highlights the need to ensure genes encoding promising drug targets, like DHDPS, are annotated correctly, especially for clinically important pathogens. PDB ID: 6UE0.

-	~~Authors:~~ Impey~~, R.E.~~, Lee, M., Hawkins~~, D.A.~~, Sutton~~, J.M.~~, Panjikar, S., Perugini~~, M.A.~~, Soares da Costa~~, T~~.P.	+	Mis-annotations of a promising antibiotic target in high-priority gram-negative pathogens.,Impey RE, Lee M, Hawkins DA, Sutton JM, Panjikar S, Perugini MA, Soares da Costa TP FEBS Lett. 2020 Jan 13. doi: 10.1002/1873-3468.13733. PMID:31943170<ref>PMID:31943170</ref>

-	~~Description: Crystal structure~~ of ~~dihydrodipicolinate synthase from Klebsiella pneumoniae bound to pyruvate~~	+	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 6ue0" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Panjikar~~, S]]	+	== References ==
-	[[Category: Hawkins, D.A]]	+	<references/>
-	[[Category: Impey, R.E]]	+	__TOC__
-	~~[[Category: Soares Da Costa, T.P]]~~	+	</StructureSection>
-	~~[[Category: Perugini, M.A~~]]	+	[[Category: 4-hydroxy-tetrahydrodipicolinate synthase]]
		+	[[Category: Large Structures]]
		+	[[Category: Costa, T P.Soares da]]
		+	[[Category: Hawkins, D A]]
		+	[[Category: Impey, R E]]
	[[Category: Lee, M]]		[[Category: Lee, M]]
		+	[[Category: Panjikar, S]]
		+	[[Category: Perugini, M A]]
		+	[[Category: Sutton, J M]]
		+	[[Category: Dhdp]]
		+	[[Category: Lyase]]
		+	[[Category: Lysine biosynthesis]]
		+	[[Category: Tetramer]]

OCA at 13:42, 11 December 2019

OCA — Wed, 11 Dec 2019 13:42:24 GMT

←Older revision		Revision as of 13:42, 11 December 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6ue0 is ON HOLD	+	The entry 6ue0 is ON HOLD until Paper Publication

	Authors: Impey, R.E., Lee, M., Hawkins, D.A., Sutton, J.M., Panjikar, S., Perugini, M.A., Soares da Costa, T.P.		Authors: Impey, R.E., Lee, M., Hawkins, D.A., Sutton, J.M., Panjikar, S., Perugini, M.A., Soares da Costa, T.P.

OCA at 04:32, 16 October 2019

OCA — Wed, 16 Oct 2019 04:32:41 GMT

←Older revision		Revision as of 04:32, 16 October 2019
Line 5:		Line 5:
	Authors: Impey, R.E., Lee, M., Hawkins, D.A., Sutton, J.M., Panjikar, S., Perugini, M.A., Soares da Costa, T.P.		Authors: Impey, R.E., Lee, M., Hawkins, D.A., Sutton, J.M., Panjikar, S., Perugini, M.A., Soares da Costa, T.P.

-	Description: Crystal structure of dihydrodipicolinate synthase from Klebsiella ~~Pneumoniae~~ bound to pyruvate	+	Description: Crystal structure of dihydrodipicolinate synthase from Klebsiella pneumoniae bound to pyruvate
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Sutton, J.M]]		[[Category: Sutton, J.M]]
	[[Category: Panjikar, S]]		[[Category: Panjikar, S]]
-	[[Category: Impey, R.E]]
	[[Category: Hawkins, D.A]]		[[Category: Hawkins, D.A]]
		+	[[Category: Impey, R.E]]
	[[Category: Soares Da Costa, T.P]]		[[Category: Soares Da Costa, T.P]]
	[[Category: Perugini, M.A]]		[[Category: Perugini, M.A]]
	[[Category: Lee, M]]		[[Category: Lee, M]]

OCA: Protected "6ue0" [edit=sysop:move=sysop]

OCA — Wed, 02 Oct 2019 08:39:57 GMT

Protected "6ue0" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:39, 2 October 2019

OCA: New page: '''Unreleased structure''' The entry 6ue0 is ON HOLD Authors: Impey, R.E., Lee, M., Hawkins, D.A., Sutton, J.M., Panjikar, S., Perugini, M.A., Soares da Costa, T.P. Description: Crysta...

OCA — Wed, 02 Oct 2019 08:39:56 GMT

New page: '''Unreleased structure''' The entry 6ue0 is ON HOLD Authors: Impey, R.E., Lee, M., Hawkins, D.A., Sutton, J.M., Panjikar, S., Perugini, M.A., Soares da Costa, T.P. Description: Crysta...

New page

'''Unreleased structure'''

The entry 6ue0 is ON HOLD

Authors: Impey, R.E., Lee, M., Hawkins, D.A., Sutton, J.M., Panjikar, S., Perugini, M.A., Soares da Costa, T.P.

Description: Crystal structure of dihydrodipicolinate synthase from Klebsiella Pneumoniae bound to pyruvate
[[Category: Unreleased Structures]]
[[Category: Sutton, J.M]]
[[Category: Panjikar, S]]
[[Category: Impey, R.E]]
[[Category: Hawkins, D.A]]
[[Category: Soares Da Costa, T.P]]
[[Category: Perugini, M.A]]
[[Category: Lee, M]]