6c3m - Revision history

OCA at 14:55, 4 October 2023

OCA — Wed, 04 Oct 2023 14:55:38 GMT

←Older revision		Revision as of 14:55, 4 October 2023
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	<StructureSection load='6c3m' size='340' side='right'caption='[[6c3m]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='6c3m' size='340' side='right'caption='[[6c3m]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6c3m]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Ecoli Ecoli~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6C3M OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6C3M FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6c3m]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6C3M OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6C3M FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene>, <scene name='pdbligand=SRM:SIROHEME'>SRM</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]] 1.5Å</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cysI, b2763, JW2733 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene>, <scene name='pdbligand=SRM:SIROHEME'>SRM</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Sulfite_reductase_(NADPH) Sulfite reductase (NADPH)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.8.1.2 1.8.1.2] </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=6c3m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6c3m OCA], [https://pdbe.org/6c3m PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6c3m RCSB], [https://www.ebi.ac.uk/pdbsum/6c3m PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6c3m 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=6c3m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6c3m OCA], [~~http~~://pdbe.org/6c3m PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6c3m RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6c3m PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6c3m ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/CYSI_ECOLI CYSI_ECOLI]] Component of the sulfite reductase complex that catalyzes the 6-electron reduction of sulfite to sulfide. This is one of several activities required for the biosynthesis of L-cysteine from sulfate.[HAMAP-Rule:MF_01540]	+	[https://www.uniprot.org/uniprot/CYSI_ECOLI CYSI_ECOLI] Component of the sulfite reductase complex that catalyzes the 6-electron reduction of sulfite to sulfide. This is one of several activities required for the biosynthesis of L-cysteine from sulfate.[HAMAP-Rule:MF_01540]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Ecoli~~]]	+	[[Category: Escherichia coli K-12]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Stroupe~~, M E]]~~	+	[[Category: Stroupe ME]]
-	~~[[Category: Fe4-s4 cluster]]~~	+
-	~~[[Category: Iron]]~~	+
-	~~[[Category: Iron-sulfur cluster]]~~	+
-	~~[[Category: Metal binding protein]]~~	+
-	~~[[Category: Redox]]~~	+
-	~~[[Category: Siroheme~~]]	+

OCA at 08:22, 27 November 2019

OCA — Wed, 27 Nov 2019 08:22:36 GMT

←Older revision		Revision as of 08:22, 27 November 2019
Line 1:		Line 1:

	==Wild type structure of SiRHP==		==Wild type structure of SiRHP==
-	<StructureSection load='6c3m' size='340' side='right' caption='[[6c3m]], [[Resolution\|resolution]] 1.50Å' scene=''>	+	<StructureSection load='6c3m' size='340' side='right'caption='[[6c3m]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6c3m]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6C3M OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6C3M FirstGlance]. <br>		<table><tr><td colspan='2'>[[6c3m]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6C3M OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6C3M FirstGlance]. <br>
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	</StructureSection>		</StructureSection>
	[[Category: Ecoli]]		[[Category: Ecoli]]
		+	[[Category: Large Structures]]
	[[Category: Stroupe, M E]]		[[Category: Stroupe, M E]]
	[[Category: Fe4-s4 cluster]]		[[Category: Fe4-s4 cluster]]

OCA at 06:26, 20 June 2018

OCA — Wed, 20 Jun 2018 06:26:41 GMT

←Older revision		Revision as of 06:26, 20 June 2018
Line 3:		Line 3:
	<StructureSection load='6c3m' size='340' side='right' caption='[[6c3m]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='6c3m' size='340' side='right' caption='[[6c3m]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6c3m]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6C3M OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6C3M FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6c3m]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6C3M OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6C3M FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene>, <scene name='pdbligand=SRM:SIROHEME'>SRM</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene>, <scene name='pdbligand=SRM:SIROHEME'>SRM</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cysI, b2763, JW2733 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Sulfite_reductase_(NADPH) Sulfite reductase (NADPH)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.8.1.2 1.8.1.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Sulfite_reductase_(NADPH) Sulfite reductase (NADPH)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.8.1.2 1.8.1.2] </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=6c3m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6c3m OCA], [http://pdbe.org/6c3m PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6c3m RCSB], [http://www.ebi.ac.uk/pdbsum/6c3m PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6c3m 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=6c3m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6c3m OCA], [http://pdbe.org/6c3m PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6c3m RCSB], [http://www.ebi.ac.uk/pdbsum/6c3m PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6c3m ProSAT]</span></td></tr>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Ecoli]]
	[[Category: Stroupe, M E]]		[[Category: Stroupe, M E]]
	[[Category: Fe4-s4 cluster]]		[[Category: Fe4-s4 cluster]]

OCA at 07:37, 14 June 2018

OCA — Thu, 14 Jun 2018 07:37:48 GMT

←Older revision		Revision as of 07:37, 14 June 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6c3m is ~~ON HOLD until Paper~~ Publication	+	==Wild type structure of SiRHP==
		+	<StructureSection load='6c3m' size='340' side='right' caption='[[6c3m]], [[Resolution\|resolution]] 1.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6c3m]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6C3M OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6C3M FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene>, <scene name='pdbligand=SRM:SIROHEME'>SRM</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Sulfite_reductase_(NADPH) Sulfite reductase (NADPH)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.8.1.2 1.8.1.2] </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=6c3m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6c3m OCA], [http://pdbe.org/6c3m PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6c3m RCSB], [http://www.ebi.ac.uk/pdbsum/6c3m PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6c3m ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CYSI_ECOLI CYSI_ECOLI]] Component of the sulfite reductase complex that catalyzes the 6-electron reduction of sulfite to sulfide. This is one of several activities required for the biosynthesis of L-cysteine from sulfate.[HAMAP-Rule:MF_01540]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The siroheme-containing subunit from the multimeric hemoflavoprotein NADPH-dependent sulfite reductase (SiR/SiRHP) catalyzes the six electron-reduction of SO3(2-) to S(2-). Siroheme is an iron-containing isobacteriochlorin that is found in sulfite and homologous siroheme-containing nitrite reductases. Siroheme does not work alone but is covalently coupled to a Fe4S4 cluster through one of the cluster's ligands. One long-standing hypothesis predicted from this observation is that the environment of one iron-containing cofactor influences the properties of the other. We tested this hypothesis by identifying three amino acids (F437, M444, and T477) that interact with the Fe4S4 cluster and probing the effect of altering them to alanine on the function and structure of the resulting enzymes by use of activity assays, X-ray crystallographic analysis, and EPR spectroscopy. We showed that F437 and M444 gate access for electron transfer to the siroheme-cluster assembly and the direct hydrogen bond between T477 and one of the cluster sulfides is important for determining the geometry of the siroheme active site.

-	~~Authors:~~ Stroupe, M.E.	+	The role of extended Fe4S4 cluster ligands in mediating sulfite reductase hemoprotein activity.,Cepeda MR, McGarry L, Pennington JM, Krzystek J, Stroupe ME Biochim Biophys Acta. 2018 May 28;1866(9):933-940. doi:, 10.1016/j.bbapap.2018.05.013. PMID:29852252<ref>PMID:29852252</ref>

-	~~Description~~: ~~WT SiRHP~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: ~~Stroupe, M.E~~]]	+	<div class="pdbe-citations 6c3m" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Stroupe, M E]]
		+	[[Category: Fe4-s4 cluster]]
		+	[[Category: Iron]]
		+	[[Category: Iron-sulfur cluster]]
		+	[[Category: Metal binding protein]]
		+	[[Category: Redox]]
		+	[[Category: Siroheme]]

OCA at 04:45, 31 January 2018

OCA — Wed, 31 Jan 2018 04:45:54 GMT

←Older revision		Revision as of 04:45, 31 January 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6c3m is ON HOLD	+	The entry 6c3m is ON HOLD until Paper Publication

	Authors: Stroupe, M.E.		Authors: Stroupe, M.E.

OCA: Protected "6c3m" [edit=sysop:move=sysop]

OCA — Wed, 17 Jan 2018 05:46:11 GMT

Protected "6c3m" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:46, 17 January 2018

OCA: New page: '''Unreleased structure''' The entry 6c3m is ON HOLD Authors: Stroupe, M.E. Description: WT SiRHP Category: Unreleased Structures Category: Stroupe, M.E

OCA — Wed, 17 Jan 2018 05:46:10 GMT

New page: '''Unreleased structure''' The entry 6c3m is ON HOLD Authors: Stroupe, M.E. Description: WT SiRHP Category: Unreleased Structures Category: Stroupe, M.E

New page

'''Unreleased structure'''

The entry 6c3m is ON HOLD

Authors: Stroupe, M.E.

Description: WT SiRHP
[[Category: Unreleased Structures]]
[[Category: Stroupe, M.E]]