5mxy - Revision history

OCA at 17:53, 8 November 2023

2023-11-08T17:53:28Z

←Older revision		Revision as of 17:53, 8 November 2023
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	<StructureSection load='5mxy' size='340' side='right'caption='[[5mxy]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='5mxy' size='340' side='right'caption='[[5mxy]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5mxy]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"candidatus_kuenenia_stuttgartiensis"_schmid_et_al._2000 "candidatus kuenenia~~ stuttgartiensis~~" schmid et al. 2000~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MXY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5MXY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5mxy]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Candidatus_Kuenenia_stuttgartiensis Candidatus Kuenenia stuttgartiensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MXY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5MXY FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=HEC:HEME+C'>HEC</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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">kustc0563 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=174633 "Candidatus Kuenenia stuttgartiensis" Schmid et al. 2000])</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=HEC:HEME+C'>HEC</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=5mxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mxy OCA], [https://pdbe.org/5mxy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5mxy RCSB], [https://www.ebi.ac.uk/pdbsum/5mxy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5mxy 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=5mxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mxy OCA], [https://pdbe.org/5mxy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5mxy RCSB], [https://www.ebi.ac.uk/pdbsum/5mxy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5mxy ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q30JB5_KUEST Q30JB5_KUEST]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Candidatus ~~kuenenia~~ stuttgartiensis ~~schmid et al. 2000~~]]	+	[[Category: Candidatus Kuenenia stuttgartiensis]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Barends, T]]	+	[[Category: Barends T]]
-	[[Category: Mohd, A]]	+	[[Category: Mohd A]]
-	~~[[Category: Anammox]]~~	+
-	~~[[Category: Cytochrome]]~~	+
-	~~[[Category: Electron transport~~]]	+

OCA at 12:42, 13 October 2021

2021-10-13T12:42:19Z

←Older revision		Revision as of 12:42, 13 October 2021
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	<StructureSection load='5mxy' size='340' side='right'caption='[[5mxy]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='5mxy' size='340' side='right'caption='[[5mxy]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5mxy]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MXY OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5MXY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5mxy]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"candidatus_kuenenia_stuttgartiensis"_schmid_et_al._2000 "candidatus kuenenia stuttgartiensis" schmid et al. 2000]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MXY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5MXY FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=HEC:HEME+C'>HEC</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=HEC:HEME+C'>HEC</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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=5mxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mxy OCA], [~~http~~://pdbe.org/5mxy PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5mxy RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5mxy PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5mxy ProSAT]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">kustc0563 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=174633 "Candidatus Kuenenia stuttgartiensis" Schmid et al. 2000])</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=5mxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mxy OCA], [https://pdbe.org/5mxy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5mxy RCSB], [https://www.ebi.ac.uk/pdbsum/5mxy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5mxy ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Anaerobic ammonium oxidation (anammox) is a bacterial process in which ammonium and nitrite are combined into dinitrogen gas and water, yielding energy for the cell. This process relies on a series of redox reactions catalyzed by a set of enzymes, with electrons being shuttled to and from these enzymes, likely by small cytochrome c proteins. For this system to work productively, these electron carriers require a degree of specificity toward the various possible redox partners they encounter in the cell. Here, we compare two cytochrome c proteins from the anammox model organism Kuenenia stuttgartiensis. We show that they are highly homologous, are expressed at comparable levels, share the same fold, and display highly similar redox potentials, yet one of them accepts electrons from the metabolic enzyme hydroxylamine oxidase (HAO) efficiently, whereas the other does not. An analysis of the crystal structures supplemented by Monte Carlo simulations of the transient redox interactions suggests that this difference is at least partly due to the electrostatic field surrounding the proteins, illustrating one way in which the electron carriers in anammox could attain the required specificity. Moreover, the simulations suggest a different "outlet" for electrons on HAO than has traditionally been assumed.
		+
		+	Specificity of Small c-Type Cytochromes in Anaerobic Ammonium Oxidation.,Akram M, Bock J, Dietl A, Barends TRM ACS Omega. 2021 Aug 9;6(33):21457-21464. doi: 10.1021/acsomega.1c02275., eCollection 2021 Aug 24. PMID:34471748<ref>PMID:34471748</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5mxy" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Transcription initiation factors 3D structures\|Transcription initiation factors 3D structures]]		*[[Transcription initiation factors 3D structures\|Transcription initiation factors 3D structures]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Candidatus kuenenia stuttgartiensis schmid et al. 2000]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Barends, T]]		[[Category: Barends, T]]

OCA at 07:31, 19 August 2020

2020-08-19T07:31:45Z

←Older revision		Revision as of 07:31, 19 August 2020
Line 1:		Line 1:

	==KustC0563 c-type cytochrome==		==KustC0563 c-type cytochrome==
-	<StructureSection load='5mxy' size='340' side='right' caption='[[5mxy]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='5mxy' size='340' side='right'caption='[[5mxy]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5mxy]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MXY OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5MXY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5mxy]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MXY OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5MXY FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=HEC:HEME+C'>HEC</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=HEC:HEME+C'>HEC</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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=5mxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mxy OCA], [http://pdbe.org/5mxy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mxy RCSB], [http://www.ebi.ac.uk/pdbsum/5mxy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mxy 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=5mxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mxy OCA], [http://pdbe.org/5mxy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mxy RCSB], [http://www.ebi.ac.uk/pdbsum/5mxy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mxy ProSAT]</span></td></tr>
	</table>		</table>
		+
		+	==See Also==
		+	*[[Transcription initiation factors 3D structures\|Transcription initiation factors 3D structures]]
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Barends, T]]		[[Category: Barends, T]]
	[[Category: Mohd, A]]		[[Category: Mohd, A]]

OCA at 06:22, 15 February 2018

2018-02-15T06:22:27Z

←Older revision		Revision as of 06:22, 15 February 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5mxy is ~~ON HOLD until Paper Publication~~	+	==KustC0563 c-type cytochrome==
-		+	<StructureSection load='5mxy' size='340' side='right' caption='[[5mxy]], [[Resolution\|resolution]] 1.90Å' scene=''>
-	~~Authors~~: ~~Mohd~~, A., ~~Barends~~, T.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5mxy]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MXY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5MXY FirstGlance]. <br>
-	~~Description~~: ~~KustC0563 c~~-~~type cytochrome~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=HEC:HEME+C'>HEC</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=5mxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mxy OCA], [http://pdbe.org/5mxy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mxy RCSB], [http://www.ebi.ac.uk/pdbsum/5mxy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mxy ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Barends, T]]
	[[Category: Mohd, A]]		[[Category: Mohd, A]]
-	[[Category: ~~Barends, T~~]]	+	[[Category: Anammox]]
		+	[[Category: Cytochrome]]
		+	[[Category: Electron transport]]

OCA at 11:46, 9 March 2017

2017-03-09T11:46:15Z

←Older revision		Revision as of 11:46, 9 March 2017
Line 7:		Line 7:
	Description: KustC0563 c-type cytochrome		Description: KustC0563 c-type cytochrome
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Barends, T]]
	[[Category: Mohd, A]]		[[Category: Mohd, A]]
		+	[[Category: Barends, T]]

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

2017-02-01T15:23:04Z

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

←Older revision

Revision as of 15:23, 1 February 2017

OCA: New page: '''Unreleased structure''' The entry 5mxy is ON HOLD until Paper Publication Authors: Mohd, A., Barends, T. Description: KustC0563 c-type cytochrome Category: Unreleased Structures...

2017-02-01T15:23:03Z

New page: '''Unreleased structure''' The entry 5mxy is ON HOLD until Paper Publication Authors: Mohd, A., Barends, T. Description: KustC0563 c-type cytochrome Category: Unreleased Structures...

New page

'''Unreleased structure'''

The entry 5mxy is ON HOLD until Paper Publication

Authors: Mohd, A., Barends, T.

Description: KustC0563 c-type cytochrome
[[Category: Unreleased Structures]]
[[Category: Barends, T]]
[[Category: Mohd, A]]