5v30 - Revision history

OCA at 10:06, 22 May 2024

OCA — Wed, 22 May 2024 10:06:02 GMT

←Older revision		Revision as of 10:06, 22 May 2024
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	<StructureSection load='5v30' size='340' side='right'caption='[[5v30]], [[Resolution\|resolution]] 3.15Å' scene=''>		<StructureSection load='5v30' size='340' side='right'caption='[[5v30]], [[Resolution\|resolution]] 3.15Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5v30]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_33277 Atcc 33277~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5V30 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5V30 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5v30]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Porphyromonas_gingivalis Porphyromonas gingivalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5V30 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5V30 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</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]] 3.15Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~AT291_03060 ([https~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=837 ATCC 33277])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=5v30 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5v30 OCA], [https://pdbe.org/5v30 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5v30 RCSB], [https://www.ebi.ac.uk/pdbsum/5v30 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5v30 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=5v30 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5v30 OCA], [https://pdbe.org/5v30 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5v30 RCSB], [https://www.ebi.ac.uk/pdbsum/5v30 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5v30 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q7MVK4_PORGI Q7MVK4_PORGI]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Atcc 33277]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Belvin, B R~~]]	+	[[Category: Porphyromonas gingivalis]]
-	[[Category: ~~Escalante, C R~~]]	+	[[Category: Belvin BR]]
-	[[Category: ~~Lewis, J P~~]]	+	[[Category: Escalante CR]]
-	[[Category: ~~Musayev, F N~~]]	+	[[Category: Lewis JP]]
-	[[Category: ~~Turner, J~~]]	+	[[Category: Musayev FN]]
-	[[Category: ~~Beta barrel]]~~	+	[[Category: Turner J]]
-	~~[[Category: Dimerization helix]]~~	+
-	~~[[Category: Heme binding protein]]~~	+
-	~~[[Category: Transcription]]~~	+
-	~~[[Category: Transcriptional regulator~~]]	+

OCA at 11:30, 23 March 2022

OCA — Wed, 23 Mar 2022 11:30:33 GMT

←Older revision		Revision as of 11:30, 23 March 2022
Line 3:		Line 3:
	<StructureSection load='5v30' size='340' side='right'caption='[[5v30]], [[Resolution\|resolution]] 3.15Å' scene=''>		<StructureSection load='5v30' size='340' side='right'caption='[[5v30]], [[Resolution\|resolution]] 3.15Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5v30]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_33277 Atcc 33277]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5V30 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5V30 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5v30]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_33277 Atcc 33277]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5V30 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5V30 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</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=GOL:GLYCEROL'>GOL</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">AT291_03060 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=837 ATCC 33277])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AT291_03060 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=837 ATCC 33277])</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=5v30 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5v30 OCA], [~~http~~://pdbe.org/5v30 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5v30 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5v30 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5v30 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=5v30 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5v30 OCA], [https://pdbe.org/5v30 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5v30 RCSB], [https://www.ebi.ac.uk/pdbsum/5v30 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5v30 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 07:41, 24 April 2019

OCA — Wed, 24 Apr 2019 07:41:53 GMT

←Older revision		Revision as of 07:41, 24 April 2019
Line 1:		Line 1:

	==Crystal structure of the sensor domain of the transcriptional regulator HcpR from Porphyromonas Gingivalis==		==Crystal structure of the sensor domain of the transcriptional regulator HcpR from Porphyromonas Gingivalis==
-	<StructureSection load='5v30' size='340' side='right' caption='[[5v30]], [[Resolution\|resolution]] 3.15Å' scene=''>	+	<StructureSection load='5v30' size='340' side='right'caption='[[5v30]], [[Resolution\|resolution]] 3.15Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5v30]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5V30 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5V30 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5v30]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_33277 Atcc 33277]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5V30 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5V30 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</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"><scene name='pdbligand=GOL:GLYCEROL'>GOL</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">AT291_03060 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=837 ATCC 33277])</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=5v30 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5v30 OCA], [http://pdbe.org/5v30 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5v30 RCSB], [http://www.ebi.ac.uk/pdbsum/5v30 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5v30 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=5v30 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5v30 OCA], [http://pdbe.org/5v30 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5v30 RCSB], [http://www.ebi.ac.uk/pdbsum/5v30 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5v30 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Although the HcpR regulator plays a vital step in initiation of the nitrosative stress response in many Gram-negative anaerobic bacteria, the molecular mechanisms that it uses to mediate gas sensing are not well understood. Here, a 2.6 A resolution crystal structure of the N-terminal sensing domain of the anaerobic periodontopathogen Porphyromonas gingivalis HcpR is presented. The protein has classical features of the regulators belonging to the FNR-CRP family and contains a hydrophobic pocket in its N-terminal sensing domain. It is shown that heme bound to HcpR exhibits heme iron as a hexacoordinate system in the absence of nitric oxide (NO) and that upon nitrosylation it transitions to a pentacoordinate system. Finally, small-angle X-ray scattering experiments on full-length HcpR reveal that the C-terminal DNA-binding domain of HcpR has a high degree of interdomain flexibility.
		+
		+	Nitrosative stress sensing in Porphyromonas gingivalis: structure of and heme binding by the transcriptional regulator HcpR.,Belvin BR, Musayev FN, Burgner J, Scarsdale JN, Escalante CR, Lewis JP Acta Crystallogr D Struct Biol. 2019 Apr 1;75(Pt 4):437-450. doi:, 10.1107/S205979831900264X. Epub 2019 Apr 5. PMID:30988260<ref>PMID:30988260</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5v30" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Atcc 33277]]
		+	[[Category: Large Structures]]
	[[Category: Belvin, B R]]		[[Category: Belvin, B R]]
	[[Category: Escalante, C R]]		[[Category: Escalante, C R]]

OCA at 07:31, 14 June 2018

OCA — Thu, 14 Jun 2018 07:31:51 GMT

←Older revision		Revision as of 07:31, 14 June 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5v30 ~~is ON HOLD until Jun 06 2019~~	+	==Crystal structure of the sensor domain of the transcriptional regulator HcpR from Porphyromonas Gingivalis==
-		+	<StructureSection load='5v30' size='340' side='right' caption='[[5v30]], [[Resolution\|resolution]] 3.15Å' scene=''>
-	~~Authors~~: ~~Musayev~~, F.N., ~~Belvin, B~~.R., ~~Escalante~~, C.R., ~~Turner, J~~., ~~Lewis, J~~.P.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5v30]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5V30 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5V30 FirstGlance]. <br>
-	~~Description: Crystal structure of the sensor domain of the transcriptional regulator HcpR from Porphyromonas Gingivalis~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<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=5v30 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5v30 OCA], [http://pdbe.org/5v30 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5v30 RCSB], [http://www.ebi.ac.uk/pdbsum/5v30 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5v30 ProSAT]</span></td></tr>
-	[[Category: ~~Belvin~~, B.R]]	+	</table>
-	[[Category: Lewis, J.P]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Belvin, B R]]
		+	[[Category: Escalante, C R]]
		+	[[Category: Lewis, J P]]
		+	[[Category: Musayev, F N]]
	[[Category: Turner, J]]		[[Category: Turner, J]]
-	[[Category: ~~Escalante, C.R~~]]	+	[[Category: Beta barrel]]
-	[[Category: ~~Musayev, F.N~~]]	+	[[Category: Dimerization helix]]
		+	[[Category: Heme binding protein]]
		+	[[Category: Transcription]]
		+	[[Category: Transcriptional regulator]]

OCA at 04:50, 28 February 2018

OCA — Wed, 28 Feb 2018 04:50:59 GMT

←Older revision		Revision as of 04:50, 28 February 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5v30 is ON HOLD until ~~Mar~~ 06 2019	+	The entry 5v30 is ON HOLD until Jun 06 2019

	Authors: Musayev, F.N., Belvin, B.R., Escalante, C.R., Turner, J., Lewis, J.P.		Authors: Musayev, F.N., Belvin, B.R., Escalante, C.R., Turner, J., Lewis, J.P.
Line 7:		Line 7:
	Description: Crystal structure of the sensor domain of the transcriptional regulator HcpR from Porphyromonas Gingivalis		Description: Crystal structure of the sensor domain of the transcriptional regulator HcpR from Porphyromonas Gingivalis
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Turner, J]]
-	[[Category: Musayev, F.N]]
	[[Category: Belvin, B.R]]		[[Category: Belvin, B.R]]
	[[Category: Lewis, J.P]]		[[Category: Lewis, J.P]]
		+	[[Category: Turner, J]]
	[[Category: Escalante, C.R]]		[[Category: Escalante, C.R]]
		+	[[Category: Musayev, F.N]]

OCA at 13:52, 27 September 2017

OCA — Wed, 27 Sep 2017 13:52:54 GMT

←Older revision		Revision as of 13:52, 27 September 2017
Line 7:		Line 7:
	Description: Crystal structure of the sensor domain of the transcriptional regulator HcpR from Porphyromonas Gingivalis		Description: Crystal structure of the sensor domain of the transcriptional regulator HcpR from Porphyromonas Gingivalis
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Lewis, J.P]]
	[[Category: Turner, J]]		[[Category: Turner, J]]
-	[[Category: Escalante, C.R]]
	[[Category: Musayev, F.N]]		[[Category: Musayev, F.N]]
	[[Category: Belvin, B.R]]		[[Category: Belvin, B.R]]
		+	[[Category: Lewis, J.P]]
		+	[[Category: Escalante, C.R]]

OCA: Protected "5v30" [edit=sysop:move=sysop]

OCA — Wed, 15 Mar 2017 19:40:52 GMT

Protected "5v30" [edit=sysop:move=sysop]

←Older revision

Revision as of 19:40, 15 March 2017

OCA: New page: '''Unreleased structure''' The entry 5v30 is ON HOLD until Mar 06 2019 Authors: Musayev, F.N., Belvin, B.R., Escalante, C.R., Turner, J., Lewis, J.P. Description: Crystal structure of ...

OCA — Wed, 15 Mar 2017 19:40:51 GMT

New page: '''Unreleased structure''' The entry 5v30 is ON HOLD until Mar 06 2019 Authors: Musayev, F.N., Belvin, B.R., Escalante, C.R., Turner, J., Lewis, J.P. Description: Crystal structure of ...

New page

'''Unreleased structure'''

The entry 5v30 is ON HOLD until Mar 06 2019

Authors: Musayev, F.N., Belvin, B.R., Escalante, C.R., Turner, J., Lewis, J.P.

Description: Crystal structure of the sensor domain of the transcriptional regulator HcpR from Porphyromonas Gingivalis
[[Category: Unreleased Structures]]
[[Category: Lewis, J.P]]
[[Category: Turner, J]]
[[Category: Escalante, C.R]]
[[Category: Musayev, F.N]]
[[Category: Belvin, B.R]]