7ve3 - Revision history

OCA at 17:23, 29 November 2023

2023-11-29T17:23:25Z

←Older revision		Revision as of 17:23, 29 November 2023
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	<StructureSection load='7ve3' size='340' side='right'caption='[[7ve3]], [[Resolution\|resolution]] 2.70Å' scene=''>		<StructureSection load='7ve3' size='340' side='right'caption='[[7ve3]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7ve3]] is a 1 chain structure. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3r5q 3r5q]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7VE3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7VE3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7ve3]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Ovis_aries Ovis aries]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3r5q 3r5q]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7VE3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7VE3 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=61D:hypoiodous+acid'>61D</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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]] 2.7Å</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Peroxidase Peroxidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.7 1.11.1.7] </span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=61D:hypoiodous+acid'>61D</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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=7ve3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ve3 OCA], [https://pdbe.org/7ve3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ve3 RCSB], [https://www.ebi.ac.uk/pdbsum/7ve3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ve3 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=7ve3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ve3 OCA], [https://pdbe.org/7ve3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ve3 RCSB], [https://www.ebi.ac.uk/pdbsum/7ve3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ve3 ProSAT]</span></td></tr>
	</table>		</table>
Line 25:		Line 25:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Peroxidase~~]]	+	[[Category: Ovis aries]]
-	[[Category: Kaur, P]]	+	[[Category: Kaur P]]
-	[[Category: Sharma, S]]	+	[[Category: Sharma S]]
-	[[Category: Singh~~, A K~~]]	+	[[Category: Singh AK]]
-	[[Category: Singh~~, P K~~]]	+	[[Category: Singh PK]]
-	[[Category: Singh~~, R P~~]]	+	[[Category: Singh RP]]
-	[[Category: Singh~~, T P~~]]	+	[[Category: Singh TP]]
-	[[Category: Sinha, M]]	+	[[Category: Sinha M]]
-	[[Category: Yamini, S]]	+	[[Category: Yamini S]]
-	~~[[Category: Lactoperoxidase]]~~	+
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 12:45, 4 May 2022

2022-05-04T12:45:43Z

←Older revision		Revision as of 12:45, 4 May 2022
Line 3:		Line 3:
	<StructureSection load='7ve3' size='340' side='right'caption='[[7ve3]], [[Resolution\|resolution]] 2.70Å' scene=''>		<StructureSection load='7ve3' size='340' side='right'caption='[[7ve3]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7ve3]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7VE3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7VE3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7ve3]] is a 1 chain structure. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3r5q 3r5q]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7VE3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7VE3 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=61D:hypoiodous+acid'>61D</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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=61D:hypoiodous+acid'>61D</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Peroxidase Peroxidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.7 1.11.1.7] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Peroxidase Peroxidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.7 1.11.1.7] </span></td></tr>

OCA at 06:33, 1 December 2021

2021-12-01T06:33:49Z

←Older revision		Revision as of 06:33, 1 December 2021
Line 1:		Line 1:

	==Structure of the complex of sheep lactoperoxidase with hypoiodite at 2.70 A resolution==		==Structure of the complex of sheep lactoperoxidase with hypoiodite at 2.70 A resolution==
-	<StructureSection load='7ve3' size='340' side='right'caption='[[7ve3]]' scene=''>	+	<StructureSection load='7ve3' size='340' side='right'caption='[[7ve3]], [[Resolution\|resolution]] 2.70Å' 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=7VE3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7VE3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7ve3]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7VE3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7VE3 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=7ve3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ve3 OCA], [https://pdbe.org/7ve3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ve3 RCSB], [https://www.ebi.ac.uk/pdbsum/7ve3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ve3 ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=61D:hypoiodous+acid'>61D</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Peroxidase Peroxidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.7 1.11.1.7] </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=7ve3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ve3 OCA], [https://pdbe.org/7ve3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ve3 RCSB], [https://www.ebi.ac.uk/pdbsum/7ve3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ve3 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Lactoperoxidase (1.11.1.7, LPO) is a mammalian heme peroxidase found in the extracellular fluids of mammals including plasma, saliva, airway epithelial lining fluids, nasal lining fluid, milk, tears, gastric juices, and intestinal mucosa. To perform its innate immune action against invading microbes, LPO utilizes hydrogen peroxide (H2 O2 ) to convert thiocyanate (SCN(-) ) and iodide (I(-) ) ions into the oxidizing compounds hypothiocyanite (OSCN(-) ) and hypoiodite (IO(-) ). Previously determined structures of the complexes of LPO with SCN(-) , OSCN(-) , and I(-) show that SCN(-) and I(-) occupy appropriate positions in the distal heme cavity as substrates while OSCN(-) binds in the distal heme cavity as a product inhibitor. We report here the structure of the complex of LPO with IO(-) as the first structural evidence of the conversion of iodide into hypoiodite by LPO. To obtain this complex, a solution of LPO was first incubated with H2 O2 , then mixed with ammonium iodide solution and the complex crystallized by the addition of PEG-3350, 20% (wt/vol). These crystals were used for X-ray intensity data collection and structure analysis. The structure determination revealed the presence of four hypoiodite ions in the substrate binding channel of LPO. In addition to these, six other hypoiodite ions were observed at different exterior sites. We surmise that the presence of hypoiodite ions in the distal heme cavity blocks the substrate binding site and inhibits catalysis. This was confirmed by activity experiments with the colorimetric substrate, ABTS (2,2'-azino-bis(3-ethylbenzthiazoline-sulfonic acid)), in the presence of hypoiodite and iodide ions.
		+
		+	Structural evidence of the oxidation of iodide ion into hyper-reactive hypoiodite ion by mammalian heme lactoperoxidase.,Singh PK, Ahmad N, Yamini S, Singh RP, Singh AK, Sharma P, Smith ML, Sharma S, Singh TP Protein Sci. 2021 Nov 11. doi: 10.1002/pro.4230. PMID:34761444<ref>PMID:34761444</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7ve3" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Lactoperoxidase\|Lactoperoxidase]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Kaur P]]	+	[[Category: Peroxidase]]
-	[[Category: Sharma S]]	+	[[Category: Kaur, P]]
-	[[Category: Singh AK]]	+	[[Category: Sharma, S]]
-	[[Category: Singh PK]]	+	[[Category: Singh, A K]]
-	[[Category: Singh RP]]	+	[[Category: Singh, P K]]
-	[[Category: Singh TP]]	+	[[Category: Singh, R P]]
-	[[Category: Sinha M]]	+	[[Category: Singh, T P]]
-	[[Category: Yamini S]]	+	[[Category: Sinha, M]]
		+	[[Category: Yamini, S]]
		+	[[Category: Lactoperoxidase]]
		+	[[Category: Oxidoreductase]]

OCA at 06:54, 22 September 2021

2021-09-22T06:54:16Z

←Older revision		Revision as of 06:54, 22 September 2021
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 7ve3 ~~is ON HOLD~~	+	==Structure of the complex of sheep lactoperoxidase with hypoiodite at 2.70 A resolution==
-		+	<StructureSection load='7ve3' size='340' side='right'caption='[[7ve3]]' scene=''>
-	~~Authors~~: ~~Singh, P~~.K.~~, Yamini, S~~.~~, Singh, R~~.P., ~~Singh, A~~.K., ~~Sinha, M~~., ~~Kaur, P~~., ~~Sharma, S~~., ~~Singh, T~~.P.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7VE3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7VE3 FirstGlance]. <br>
-	~~Description: Structure of the complex of sheep lactoperoxidase with hypoiodite at 2.70 A resolution~~	+	</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=7ve3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ve3 OCA], [https://pdbe.org/7ve3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ve3 RCSB], [https://www.ebi.ac.uk/pdbsum/7ve3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ve3 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: ~~Sinha, M~~]]	+	__TOC__
-	[[Category: ~~Yamini,~~ S]]	+	</StructureSection>
-	[[Category: Singh~~, P.K~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Sharma, S~~]]	+	[[Category: Kaur P]]
-	[[Category: Singh~~, R.P~~]]	+	[[Category: Sharma S]]
-	[[Category: Singh~~, T.P~~]]	+	[[Category: Singh AK]]
-	[[Category: ~~Singh, A.K~~]]	+	[[Category: Singh PK]]
-	[[Category: ~~Kaur, P~~]]	+	[[Category: Singh RP]]
		+	[[Category: Singh TP]]
		+	[[Category: Sinha M]]
		+	[[Category: Yamini S]]

OCA: Protected "7ve3" [edit=sysop:move=sysop]

2021-09-15T08:28:12Z

Protected "7ve3" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:28, 15 September 2021

OCA: New page: '''Unreleased structure''' The entry 7ve3 is ON HOLD Authors: Singh, P.K., Yamini, S., Singh, R.P., Singh, A.K., Sinha, M., Kaur, P., Sharma, S., Singh, T.P. Description: Structure of ...

2021-09-15T08:28:11Z

New page: '''Unreleased structure''' The entry 7ve3 is ON HOLD Authors: Singh, P.K., Yamini, S., Singh, R.P., Singh, A.K., Sinha, M., Kaur, P., Sharma, S., Singh, T.P. Description: Structure of ...

New page

'''Unreleased structure'''

The entry 7ve3 is ON HOLD

Authors: Singh, P.K., Yamini, S., Singh, R.P., Singh, A.K., Sinha, M., Kaur, P., Sharma, S., Singh, T.P.

Description: Structure of the complex of sheep lactoperoxidase with hypoiodite at 2.70 A resolution
[[Category: Unreleased Structures]]
[[Category: Sinha, M]]
[[Category: Yamini, S]]
[[Category: Singh, P.K]]
[[Category: Sharma, S]]
[[Category: Singh, R.P]]
[[Category: Singh, T.P]]
[[Category: Singh, A.K]]
[[Category: Kaur, P]]