6lk7 - Revision history

OCA at 10:46, 27 March 2024

OCA — Wed, 27 Mar 2024 10:46:32 GMT

←Older revision		Revision as of 10:46, 27 March 2024
Line 3:		Line 3:
	<StructureSection load='6lk7' size='340' side='right'caption='[[6lk7]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='6lk7' size='340' side='right'caption='[[6lk7]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6lk7]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Pseudomonas_sp.~~_os17~~ Pseudomonas sp. ~~os17~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6LK7 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6LK7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6lk7]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_sp._Os17 Pseudomonas sp. Os17]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6LK7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6LK7 FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~PMI18_04289~~, ~~POS17_1348 (~~[~~http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=1500686 Pseudomonas sp. Os17])~~</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]] 1.903Å</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=6lk7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6lk7 OCA], [~~http~~://pdbe.org/6lk7 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6lk7 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6lk7 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6lk7 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=6lk7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6lk7 OCA], [https://pdbe.org/6lk7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6lk7 RCSB], [https://www.ebi.ac.uk/pdbsum/6lk7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6lk7 ProSAT]</span></td></tr>
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/A0A0D6BD52_9PSED A0A0D6BD52_9PSED]
-	~~Many root-colonizing Pseudomonas spp~~. ~~exhibiting biocontrol activities produce a wide range of secondary metabolites that exert antibiotic effects against other microbes, nematodes, and insects in the rhizosphere~~. ~~The expression of these secondary metabolites depends on the Gac~~/Rsm signal transduction pathway. Based on the findings of a previous genomic study on newly isolated biocontrol pseudomonad strains, we herein investigated the novel gene cluster OS3, which consists of four genes (Os1348-Os1351) that are located upstream of putative efflux transporter genes (Os1352-Os1355). Os1348 was predicted to encode an 85-aa small precursor protein, the expression of which was under the control of GacA, and an X-ray structural analysis suggested that the Os1348 protein formed a dimer. The mutational loss of the Os1348 gene decreased the antibiotic activity of Pseudomonas sp. Os17 without changing its growth rate. The Os1349-1351 genes were predicted to be involved in post-translational modifications. Intracellular levels of the Os1348 protein in the deficient mutant of each gene differed from that in wild-type cells. These results suggest that Os1348 is involved in antibiotic activity and that the structure or expression of this protein is under the control of downstream gene products.	+

-	Discovery of an Antibiotic-Related Small Protein of Biocontrol Strain Pseudomonas sp. Os17 by a Genome-Mining Strategy.,Takeuchi K, Tsuchiya W, Fujimoto Z, Yamada K, Someya N, Yamazaki T Front Microbiol. 2020 Nov 26;11:605705. doi: 10.3389/fmicb.2020.605705., eCollection 2020. PMID:33324389<ref>PMID:33324389</ref>	+	==See Also==
-		+	*[[Nitrile hydratase\|Nitrile hydratase]]
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 6lk7" style="background-color:#fffaf0;"></div>~~	+
-	== ~~References~~ ==	+
-	~~<references/>~~	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Pseudomonas sp. ~~os17~~]]	+	[[Category: Pseudomonas sp. Os17]]
-	[[Category: Fujimoto, Z]]	+	[[Category: Fujimoto Z]]
-	[[Category: Someya, N]]	+	[[Category: Someya N]]
-	[[Category: Takeuchi, K]]	+	[[Category: Takeuchi K]]
-	[[Category: Tsuchiya, W]]	+	[[Category: Tsuchiya W]]
-	[[Category: Yamada, K]]	+	[[Category: Yamada K]]
-	[[Category: Yamazaki, T]]	+	[[Category: Yamazaki T]]
-	~~[[Category: Antibiotic-related protein]]~~	+
-	~~[[Category: Unknown function~~]]	+

OCA at 06:53, 30 December 2020

OCA — Wed, 30 Dec 2020 06:53:54 GMT

←Older revision		Revision as of 06:53, 30 December 2020
Line 1:		Line 1:

	==crystal structure of Os1348 from Pseudomonas sp. Os17==		==crystal structure of Os1348 from Pseudomonas sp. Os17==
-	<StructureSection load='6lk7' size='340' side='right'caption='[[6lk7]]' scene=''>	+	<StructureSection load='6lk7' size='340' side='right'caption='[[6lk7]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6LK7 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6LK7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6lk7]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_sp._os17 Pseudomonas sp. os17]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6LK7 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6LK7 FirstGlance]. <br>
-	</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=6lk7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6lk7 OCA], [http://pdbe.org/6lk7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6lk7 RCSB], [http://www.ebi.ac.uk/pdbsum/6lk7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6lk7 ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PMI18_04289, POS17_1348 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1500686 Pseudomonas sp. Os17])</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=6lk7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6lk7 OCA], [http://pdbe.org/6lk7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6lk7 RCSB], [http://www.ebi.ac.uk/pdbsum/6lk7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6lk7 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Many root-colonizing Pseudomonas spp. exhibiting biocontrol activities produce a wide range of secondary metabolites that exert antibiotic effects against other microbes, nematodes, and insects in the rhizosphere. The expression of these secondary metabolites depends on the Gac/Rsm signal transduction pathway. Based on the findings of a previous genomic study on newly isolated biocontrol pseudomonad strains, we herein investigated the novel gene cluster OS3, which consists of four genes (Os1348-Os1351) that are located upstream of putative efflux transporter genes (Os1352-Os1355). Os1348 was predicted to encode an 85-aa small precursor protein, the expression of which was under the control of GacA, and an X-ray structural analysis suggested that the Os1348 protein formed a dimer. The mutational loss of the Os1348 gene decreased the antibiotic activity of Pseudomonas sp. Os17 without changing its growth rate. The Os1349-1351 genes were predicted to be involved in post-translational modifications. Intracellular levels of the Os1348 protein in the deficient mutant of each gene differed from that in wild-type cells. These results suggest that Os1348 is involved in antibiotic activity and that the structure or expression of this protein is under the control of downstream gene products.
		+
		+	Discovery of an Antibiotic-Related Small Protein of Biocontrol Strain Pseudomonas sp. Os17 by a Genome-Mining Strategy.,Takeuchi K, Tsuchiya W, Fujimoto Z, Yamada K, Someya N, Yamazaki T Front Microbiol. 2020 Nov 26;11:605705. doi: 10.3389/fmicb.2020.605705., eCollection 2020. PMID:33324389<ref>PMID:33324389</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6lk7" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Fujimoto Z]]	+	[[Category: Pseudomonas sp. os17]]
-	[[Category: Someya N]]	+	[[Category: Fujimoto, Z]]
-	[[Category: Takeuchi K]]	+	[[Category: Someya, N]]
-	[[Category: Tsuchiya W]]	+	[[Category: Takeuchi, K]]
-	[[Category: Yamada K]]	+	[[Category: Tsuchiya, W]]
-	[[Category: Yamazaki T]]	+	[[Category: Yamada, K]]
		+	[[Category: Yamazaki, T]]
		+	[[Category: Antibiotic-related protein]]
		+	[[Category: Unknown function]]

OCA at 07:57, 11 November 2020

OCA — Wed, 11 Nov 2020 07:57:45 GMT

←Older revision		Revision as of 07:57, 11 November 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6lk7 is ~~ON HOLD until Paper Publication~~	+	==crystal structure of Os1348 from Pseudomonas sp. Os17==
-		+	<StructureSection load='6lk7' size='340' side='right'caption='[[6lk7]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6LK7 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6LK7 FirstGlance]. <br>
-	~~Description~~:	+	</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=6lk7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6lk7 OCA], [http://pdbe.org/6lk7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6lk7 RCSB], [http://www.ebi.ac.uk/pdbsum/6lk7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6lk7 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Fujimoto Z]]
		+	[[Category: Someya N]]
		+	[[Category: Takeuchi K]]
		+	[[Category: Tsuchiya W]]
		+	[[Category: Yamada K]]
		+	[[Category: Yamazaki T]]

OCA at 06:34, 1 January 2020

OCA — Wed, 01 Jan 2020 06:34:27 GMT

←Older revision		Revision as of 06:34, 1 January 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6lk7 is ON HOLD	+	The entry 6lk7 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6lk7" [edit=sysop:move=sysop]

OCA — Wed, 25 Dec 2019 07:09:53 GMT

Protected "6lk7" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:09, 25 December 2019

OCA: New page: '''Unreleased structure''' The entry 6lk7 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 25 Dec 2019 07:09:51 GMT

New page: '''Unreleased structure''' The entry 6lk7 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6lk7 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]