4fgq - Revision history

OCA at 11:16, 1 March 2024

2024-03-01T11:16:25Z

←Older revision		Revision as of 11:16, 1 March 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4fgq]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Legionella_pneumophila_subsp._pneumophila_str._Philadelphia_1 Legionella pneumophila subsp. pneumophila str. Philadelphia 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FGQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4FGQ FirstGlance]. <br>		<table><tr><td colspan='2'>[[4fgq]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Legionella_pneumophila_subsp._pneumophila_str._Philadelphia_1 Legionella pneumophila subsp. pneumophila str. Philadelphia 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FGQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4FGQ FirstGlance]. <br>
-	</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=4fgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fgq OCA], [https://pdbe.org/4fgq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4fgq RCSB], [https://www.ebi.ac.uk/pdbsum/4fgq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4fgq ProSAT]</span></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]] 1.645Å</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=4fgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fgq OCA], [https://pdbe.org/4fgq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4fgq RCSB], [https://www.ebi.ac.uk/pdbsum/4fgq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4fgq ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/Q5ZXA4_LEGPH Q5ZXA4_LEGPH]		[https://www.uniprot.org/uniprot/Q5ZXA4_LEGPH Q5ZXA4_LEGPH]
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The bacterial dinucleotide second messenger c-di-GMP has emerged as a central molecule in regulating bacterial behavior, including motility and biofilm formation. Proteins for the synthesis and degradation of c-di-GMP and effectors for its signal transmission are widely used in the bacterial domain. Previous work established the GGDEF-EAL domain-containing receptor LapD as a central switch in Pseudomonas fluorescens cell adhesion. LapD senses c-di-GMP inside the cytosol and relays this signal to the outside by the differential recruitment of the periplasmic protease LapG. Here we identify the core components of an orthologous system in Legionella pneumophila. Despite only moderate sequence conservation at the protein level, key features concerning the regulation of LapG are retained. The output domain of the LapD-like receptor from L. pneumophila, CdgS9, binds the LapG ortholog involving a strictly conserved surface tryptophan residue. While the endogenous substrate for L. pneumophila LapG is unknown, the enzyme processed the corresponding P. fluorescens substrate, indicating a common catalytic mechanism and substrate recognition. Crystal structures of L. pneumophila LapG provide the first atomic models of bacterial proteases of the DUF920 family and reveal a conserved calcium-binding site important for LapG function.
-
-	Structural characterization of a conserved, calcium-dependent periplasmic protease from Legionella pneumophila.,Chatterjee D, Boyd CD, O'Toole GA, Sondermann H J Bacteriol. 2012 Aug;194(16):4415-25. doi: 10.1128/JB.00640-12. Epub 2012 Jun, 15. PMID:22707706<ref>PMID:22707706</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 4fgq" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 19:47, 19 October 2022

2022-10-19T19:47:53Z

←Older revision		Revision as of 19:47, 19 October 2022
Line 1:		Line 1:

	==Legionella pneumophila LapG==		==Legionella pneumophila LapG==
-	<StructureSection load='4fgq' size='340' side='right' caption='[[4fgq]], [[Resolution\|resolution]] 1.65Å' scene=''>	+	<StructureSection load='4fgq' size='340' side='right'caption='[[4fgq]], [[Resolution\|resolution]] 1.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4fgq]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Legph Legph~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FGQ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4FGQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4fgq]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Legionella_pneumophila_subsp._pneumophila_str._Philadelphia_1 Legionella pneumophila subsp. pneumophila str. Philadelphia 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FGQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4FGQ FirstGlance]. <br>
-	</td></tr>~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4fgo\|4fgo]], [[4fgp\|4fgp]]</td></tr>~~	+	</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=4fgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fgq OCA], [https://pdbe.org/4fgq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4fgq RCSB], [https://www.ebi.ac.uk/pdbsum/4fgq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4fgq ProSAT]</span></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">lpg0828 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=272624 LEGPH])</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=4fgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fgq OCA], [~~http~~://pdbe.org/4fgq PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4fgq RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4fgq PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4fgq ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q5ZXA4_LEGPH Q5ZXA4_LEGPH]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Legph~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Boyd, C D~~]]	+	[[Category: Legionella pneumophila subsp. pneumophila str. Philadelphia 1]]
-	[[Category: ~~Chatterjee, D~~]]	+	[[Category: Boyd CD]]
-	[[Category: ~~Sondermann, H~~]]	+	[[Category: Chatterjee D]]
-	[[Category: Toole~~, G A.O~~]]	+	[[Category: O'Toole GA]]
-	[[Category: ~~Calcium binding]]~~	+	[[Category: Sondermann H]]
-	~~[[Category: Duf920]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Protease~~]]	+

OCA at 18:47, 11 August 2016

2016-08-11T18:47:56Z

←Older revision		Revision as of 18:47, 11 August 2016
Line 1:		Line 1:
		+
	==Legionella pneumophila LapG==		==Legionella pneumophila LapG==
	<StructureSection load='4fgq' size='340' side='right' caption='[[4fgq]], [[Resolution\|resolution]] 1.65Å' scene=''>		<StructureSection load='4fgq' size='340' side='right' caption='[[4fgq]], [[Resolution\|resolution]] 1.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4fgq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Legionella_pneumophila_subsp._pneumophila_str._philadelphia_1 Legionella pneumophila subsp. pneumophila str. philadelphia 1~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FGQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4FGQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4fgq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Legph Legph]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FGQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4FGQ FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4fgo\|4fgo]], [[4fgp\|4fgp]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4fgo\|4fgo]], [[4fgp\|4fgp]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">lpg0828 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=272624 ~~Legionella pneumophila subsp. pneumophila str. Philadelphia 1~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">lpg0828 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=272624 LEGPH])</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=4fgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fgq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4fgq RCSB], [http://www.ebi.ac.uk/pdbsum/4fgq PDBsum]</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=4fgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fgq OCA], [http://pdbe.org/4fgq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4fgq RCSB], [http://www.ebi.ac.uk/pdbsum/4fgq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4fgq ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 15:		Line 16:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 4fgq" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Legionella pneumophila subsp. pneumophila str. philadelphia 1~~]]	+	[[Category: Legph]]
	[[Category: Boyd, C D]]		[[Category: Boyd, C D]]
	[[Category: Chatterjee, D]]		[[Category: Chatterjee, D]]

OCA at 14:20, 5 January 2015

2015-01-05T14:20:28Z

←Older revision		Revision as of 14:20, 5 January 2015
Line 1:		Line 1:
-	[[~~Image:~~4fgq.~~png~~\|~~left~~\|~~200px~~]]	+	==Legionella pneumophila LapG==
		+	<StructureSection load='4fgq' size='340' side='right' caption='[[4fgq]], [[Resolution\|resolution]] 1.65Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4fgq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Legionella_pneumophila_subsp._pneumophila_str._philadelphia_1 Legionella pneumophila subsp. pneumophila str. philadelphia 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FGQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4FGQ FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4fgo\|4fgo]], [[4fgp\|4fgp]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">lpg0828 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=272624 Legionella pneumophila subsp. pneumophila str. Philadelphia 1])</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=4fgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fgq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4fgq RCSB], [http://www.ebi.ac.uk/pdbsum/4fgq PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The bacterial dinucleotide second messenger c-di-GMP has emerged as a central molecule in regulating bacterial behavior, including motility and biofilm formation. Proteins for the synthesis and degradation of c-di-GMP and effectors for its signal transmission are widely used in the bacterial domain. Previous work established the GGDEF-EAL domain-containing receptor LapD as a central switch in Pseudomonas fluorescens cell adhesion. LapD senses c-di-GMP inside the cytosol and relays this signal to the outside by the differential recruitment of the periplasmic protease LapG. Here we identify the core components of an orthologous system in Legionella pneumophila. Despite only moderate sequence conservation at the protein level, key features concerning the regulation of LapG are retained. The output domain of the LapD-like receptor from L. pneumophila, CdgS9, binds the LapG ortholog involving a strictly conserved surface tryptophan residue. While the endogenous substrate for L. pneumophila LapG is unknown, the enzyme processed the corresponding P. fluorescens substrate, indicating a common catalytic mechanism and substrate recognition. Crystal structures of L. pneumophila LapG provide the first atomic models of bacterial proteases of the DUF920 family and reveal a conserved calcium-binding site important for LapG function.

-	~~{{STRUCTURE_4fgq\| PDB=4fgq \| SCENE= }}~~	+	Structural characterization of a conserved, calcium-dependent periplasmic protease from Legionella pneumophila.,Chatterjee D, Boyd CD, O'Toole GA, Sondermann H J Bacteriol. 2012 Aug;194(16):4415-25. doi: 10.1128/JB.00640-12. Epub 2012 Jun, 15. PMID:22707706<ref>PMID:22707706</ref>

-	~~===Legionella pneumophila LapG===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_22707706}}~~	+	== References ==
-		+	<references/>
-	==~~About this Structure~~==	+	__TOC__
-	~~[[4fgq]] is a 2 chain structure with sequence from [http:~~//en.wikipedia.org/wiki/Legionella_pneumophila_subsp._pneumophila_str._philadelphia_1 Legionella pneumophila subsp. pneumophila str. philadelphia 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FGQ OCA].	+	</StructureSection>
	[[Category: Legionella pneumophila subsp. pneumophila str. philadelphia 1]]		[[Category: Legionella pneumophila subsp. pneumophila str. philadelphia 1]]
-	[[Category: Boyd, C D.]]	+	[[Category: Boyd, C D]]
-	[[Category: Chatterjee, D.]]	+	[[Category: Chatterjee, D]]
-	[[Category: Sondermann, H.]]	+	[[Category: Sondermann, H]]
-	[[Category: Toole, G A.O.]]	+	[[Category: Toole, G A.O]]
	[[Category: Calcium binding]]		[[Category: Calcium binding]]
	[[Category: Duf920]]		[[Category: Duf920]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Protease]]		[[Category: Protease]]

OCA at 08:16, 9 January 2013

2013-01-09T08:16:43Z

←Older revision		Revision as of 08:16, 9 January 2013
Line 1:		Line 1:
-	[[Image:4fgq.~~jpg~~\|left\|200px]]	+	[[Image:4fgq.png\|left\|200px]]

	{{STRUCTURE_4fgq\| PDB=4fgq \| SCENE= }}		{{STRUCTURE_4fgq\| PDB=4fgq \| SCENE= }}
Line 5:		Line 5:
	===Legionella pneumophila LapG===		===Legionella pneumophila LapG===

		+	{{ABSTRACT_PUBMED_22707706}}

	==About this Structure==		==About this Structure==
-	[[4fgq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Legionella_pneumophila_subsp.~~_pneumophila~~ Legionella pneumophila subsp. pneumophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FGQ OCA].	+	[[4fgq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Legionella_pneumophila_subsp._pneumophila_str._philadelphia_1 Legionella pneumophila subsp. pneumophila str. philadelphia 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FGQ OCA].
-	[[Category: Legionella pneumophila subsp. pneumophila]]	+	[[Category: Legionella pneumophila subsp. pneumophila str. philadelphia 1]]
	[[Category: Boyd, C D.]]		[[Category: Boyd, C D.]]
	[[Category: Chatterjee, D.]]		[[Category: Chatterjee, D.]]

OCA at 08:02, 20 June 2012

2012-06-20T08:02:06Z

←Older revision		Revision as of 08:02, 20 June 2012
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:4fgq.jpg\|left\|200px]]

-	~~The entry~~ 4fgq ~~is ON HOLD~~	+	{{STRUCTURE_4fgq\| PDB=4fgq \| SCENE= }}

-	~~Authors: Chatterjee, D., Boyd, C.D., O'Toole. G.A., Sondermann, H.~~	+	===Legionella pneumophila LapG===

-	~~Description~~: Legionella pneumophila ~~LapG~~	+
		+	==About this Structure==
		+	[[4fgq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Legionella_pneumophila_subsp._pneumophila Legionella pneumophila subsp. pneumophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FGQ OCA].
		+	[[Category: Legionella pneumophila subsp. pneumophila]]
		+	[[Category: Boyd, C D.]]
		+	[[Category: Chatterjee, D.]]
		+	[[Category: Sondermann, H.]]
		+	[[Category: Toole, G A.O.]]
		+	[[Category: Calcium binding]]
		+	[[Category: Duf920]]
		+	[[Category: Hydrolase]]
		+	[[Category: Protease]]

OCA: Protected "4fgq" [edit=sysop:move=sysop]

2012-06-13T05:51:59Z

Protected "4fgq" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:51, 13 June 2012

OCA: New page: '''Unreleased structure''' The entry 4fgq is ON HOLD Authors: Chatterjee, D., Boyd, C.D., O'Toole. G.A., Sondermann, H. Description: Legionella pneumophila LapG

2012-06-13T05:51:58Z

New page: '''Unreleased structure''' The entry 4fgq is ON HOLD Authors: Chatterjee, D., Boyd, C.D., O'Toole. G.A., Sondermann, H. Description: Legionella pneumophila LapG

New page

'''Unreleased structure'''

The entry 4fgq is ON HOLD

Authors: Chatterjee, D., Boyd, C.D., O'Toole. G.A., Sondermann, H.

Description: Legionella pneumophila LapG