4m46 - Revision history

OCA at 16:31, 20 September 2023

2023-09-20T16:31:26Z

←Older revision		Revision as of 16:31, 20 September 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4m46]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Lampyris_turkestanicus Lampyris turkestanicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4M46 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4M46 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4m46]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Lampyris_turkestanicus Lampyris turkestanicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4M46 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4M46 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=4m46 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4m46 OCA], [https://pdbe.org/4m46 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4m46 RCSB], [https://www.ebi.ac.uk/pdbsum/4m46 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4m46 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]] 2.7Å</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=4m46 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4m46 OCA], [https://pdbe.org/4m46 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4m46 RCSB], [https://www.ebi.ac.uk/pdbsum/4m46 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4m46 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 10:53, 21 December 2022

2022-12-21T10:53:47Z

←Older revision		Revision as of 10:53, 21 December 2022
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	<StructureSection load='4m46' size='340' side='right'caption='[[4m46]], [[Resolution\|resolution]] 2.70Å' scene=''>		<StructureSection load='4m46' size='340' side='right'caption='[[4m46]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4m46]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Iranian_firefly Iranian firefly~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4M46 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4M46 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4m46]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Lampyris_turkestanicus Lampyris turkestanicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4M46 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4M46 FirstGlance]. <br>
-	</td></tr>~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3qya\|3qya]]</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=4m46 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4m46 OCA], [https://pdbe.org/4m46 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4m46 RCSB], [https://www.ebi.ac.uk/pdbsum/4m46 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4m46 ProSAT]</span></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Photinus-luciferin_4-monooxygenase_(ATP-hydrolyzing) Photinus-luciferin 4-monooxygenase (ATP-hydrolyzing)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.12.7 1.13.12.7] </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=4m46 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4m46 OCA], [~~http~~://pdbe.org/4m46 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4m46 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4m46 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4m46 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q5UFR2_9COLE Q5UFR2_9COLE]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	==See Also==		==See Also==
-	*[[Luciferase\|Luciferase]]	+	*[[Luciferase 3D structures\|Luciferase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Iranian firefly~~]]	+	[[Category: Lampyris turkestanicus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Hosseinkhani, S]]	+	[[Category: Hosseinkhani S]]
-	[[Category: Naderi-manesh, H]]	+	[[Category: Naderi-manesh H]]
-	[[Category: Sharafian, Z]]	+	[[Category: Sharafian Z]]
-	~~[[Category: Atp binding]]~~	+
-	~~[[Category: Bioluminescence]]~~	+
-	~~[[Category: Light emitting]]~~	+
-	~~[[Category: Luciferin-binding]]~~	+
-	~~[[Category: Monooxygenase]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Oxidoreductase activity~~]]	+

OCA at 08:39, 3 April 2019

2019-04-03T08:39:06Z

←Older revision		Revision as of 08:39, 3 April 2019
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	==Crystal structure of a green-emitter native of Lampyris turkestanicus luciferase==		==Crystal structure of a green-emitter native of Lampyris turkestanicus luciferase==
-	<StructureSection load='4m46' size='340' side='right' caption='[[4m46]], [[Resolution\|resolution]] 2.70Å' scene=''>	+	<StructureSection load='4m46' size='340' side='right'caption='[[4m46]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4m46]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Iranian_firefly Iranian firefly]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4M46 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4M46 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4m46]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Iranian_firefly Iranian firefly]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4M46 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4M46 FirstGlance]. <br>
Line 25:		Line 25:
	</StructureSection>		</StructureSection>
	[[Category: Iranian firefly]]		[[Category: Iranian firefly]]
		+	[[Category: Large Structures]]
	[[Category: Hosseinkhani, S]]		[[Category: Hosseinkhani, S]]
	[[Category: Naderi-manesh, H]]		[[Category: Naderi-manesh, H]]

OCA at 19:41, 5 August 2016

2016-08-05T19:41:22Z

←Older revision		Revision as of 19:41, 5 August 2016
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-	{{STRUCTURE_4m46\| PDB=4m46 \| SCENE= }}
-	===Crystal structure of a green-emitter native of Lampyris turkestanicus luciferase===
-	{{ABSTRACT_PUBMED_24103420}}

-	==~~About this Structure~~==	+	==Crystal structure of a green-emitter native of Lampyris turkestanicus luciferase==
-	[[4m46]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Iranian_firefly Iranian firefly]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4M46 OCA].	+	<StructureSection load='4m46' size='340' side='right' caption='[[4m46]], [[Resolution\|resolution]] 2.70Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4m46]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Iranian_firefly Iranian firefly]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4M46 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4M46 FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3qya\|3qya]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Photinus-luciferin_4-monooxygenase_(ATP-hydrolyzing) Photinus-luciferin 4-monooxygenase (ATP-hydrolyzing)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.12.7 1.13.12.7] </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=4m46 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4m46 OCA], [http://pdbe.org/4m46 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4m46 RCSB], [http://www.ebi.ac.uk/pdbsum/4m46 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4m46 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Firefly bioluminescence reaction in the presence of Mg2+, ATP and molecular oxygen is carried out by luciferase. The luciferase structure alterations or modifications of assay conditions determine the bioluminescence color of firefly luciferase. Among different beetle luciferases, Phrixothrix hirtus railroad worm emits either yellow or red bioluminescence color. Sequence alignment analysis shows that the red-emitter luciferase from P. hirtus has an additional arginine residue at 353 that is absent in other firefly luciferases. It was reported that insertion of Arg in an important flexible loop350-359 showed changes in bioluminescence color from green to red and the optimum temperature activity was also increased. To explain the color tuning mechanism of firefly luciferase, the structure of native and a mutant (E354R/356R/H431Y) of Lampyris turkestanicus luciferase is determined at 2.7A and 2.2A resolutions, respectively. The comparison of structure of both types of L. turkestanicus luciferases reveals that the conformation of this flexible loop is significantly changed by addition of two Arg in this region. Moreover, its surface accessibility is affected considerably and some ionic bonds are made by addition of two positive charge residues. Furthermore, we noticed that the hydrogen bonding pattern of His431 with the flexible loop is changed by replacing this residue with Tyr at this position. Juxtaposition of a flexible loop (residues 351-359) in firefly luciferase and corresponding ionic and hydrogen bonds is essential for color emission.
		+
		+	Crystal structure of native and a mutant of Lampyris turkestanicus luciferase implicate in bioluminescence color shift.,Kheirabadi M, Sharafian Z, Naderi-Manesh H, Heineman U, Gohlke U, Hosseinkhani S Biochim Biophys Acta. 2013 Oct 6. pii: S1570-9639(13)00356-7. doi:, 10.1016/j.bbapap.2013.09.022. PMID:24103420<ref>PMID:24103420</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 4m46" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Luciferase\|Luciferase]]		*[[Luciferase\|Luciferase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	~~<ref group="xtra">PMID:024103420</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Iranian firefly]]		[[Category: Iranian firefly]]
-	[[Category: Hosseinkhani, S.]]	+	[[Category: Hosseinkhani, S]]
-	[[Category: Naderi-manesh, H.]]	+	[[Category: Naderi-manesh, H]]
-	[[Category: Sharafian, Z.]]	+	[[Category: Sharafian, Z]]
	[[Category: Atp binding]]		[[Category: Atp binding]]
	[[Category: Bioluminescence]]		[[Category: Bioluminescence]]

OCA at 06:30, 26 March 2014

2014-03-26T06:30:38Z

←Older revision		Revision as of 06:30, 26 March 2014
Line 4:		Line 4:

	==About this Structure==		==About this Structure==
-	[[4m46]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Lampyris_turkestanicus Lampyris turkestanicus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4M46 OCA].	+	[[4m46]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Iranian_firefly Iranian firefly]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4M46 OCA].
		+
		+	==See Also==
		+	*[[Luciferase\|Luciferase]]

	==Reference==		==Reference==
	<ref group="xtra">PMID:024103420</ref><references group="xtra"/><references/>		<ref group="xtra">PMID:024103420</ref><references group="xtra"/><references/>
-	[[Category: ~~Lampyris turkestanicus~~]]	+	[[Category: Iranian firefly]]
	[[Category: Hosseinkhani, S.]]		[[Category: Hosseinkhani, S.]]
	[[Category: Naderi-manesh, H.]]		[[Category: Naderi-manesh, H.]]

OCA at 09:33, 30 October 2013

2013-10-30T09:33:26Z

←Older revision		Revision as of 09:33, 30 October 2013
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-	~~'''Unreleased~~ structure~~'''~~	+	{{STRUCTURE_4m46\| PDB=4m46 \| SCENE= }}
		+	===Crystal structure of a green-emitter native of Lampyris turkestanicus luciferase===
		+	{{ABSTRACT_PUBMED_24103420}}

-	~~The entry~~ 4m46 is ~~ON HOLD until Paper Publication~~	+	==About this Structure==
		+	[[4m46]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Lampyris_turkestanicus Lampyris turkestanicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4M46 OCA].

-	~~Authors~~: ~~Sharafian, Z.,~~ Hosseinkhani, S., Naderi-manesh, H.	+	==Reference==
-		+	<ref group="xtra">PMID:024103420</ref><references group="xtra"/><references/>
-	~~Description~~: ~~Crystal structure of a green~~-~~emitter native of Lampyris turkestanicus luciferase~~	+	[[Category: Lampyris turkestanicus]]
		+	[[Category: Hosseinkhani, S.]]
		+	[[Category: Naderi-manesh, H.]]
		+	[[Category: Sharafian, Z.]]
		+	[[Category: Atp binding]]
		+	[[Category: Bioluminescence]]
		+	[[Category: Light emitting]]
		+	[[Category: Luciferin-binding]]
		+	[[Category: Monooxygenase]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: Oxidoreductase activity]]

OCA at 04:47, 12 September 2013

2013-09-12T04:47:18Z

←Older revision		Revision as of 04:47, 12 September 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4m46 is ON HOLD	+	The entry 4m46 is ON HOLD until Paper Publication

	Authors: Sharafian, Z., Hosseinkhani, S., Naderi-manesh, H.		Authors: Sharafian, Z., Hosseinkhani, S., Naderi-manesh, H.

	Description: Crystal structure of a green-emitter native of Lampyris turkestanicus luciferase		Description: Crystal structure of a green-emitter native of Lampyris turkestanicus luciferase

OCA: Protected "4m46" [edit=sysop:move=sysop]

2013-08-14T07:25:42Z

Protected "4m46" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:25, 14 August 2013

OCA: New page: '''Unreleased structure''' The entry 4m46 is ON HOLD Authors: Sharafian, Z., Hosseinkhani, S., Naderi-manesh, H. Description: Crystal structure of a green-emitter native of Lampyris tu...

2013-08-14T07:25:41Z

New page: '''Unreleased structure''' The entry 4m46 is ON HOLD Authors: Sharafian, Z., Hosseinkhani, S., Naderi-manesh, H. Description: Crystal structure of a green-emitter native of Lampyris tu...

New page

'''Unreleased structure'''

The entry 4m46 is ON HOLD

Authors: Sharafian, Z., Hosseinkhani, S., Naderi-manesh, H.

Description: Crystal structure of a green-emitter native of Lampyris turkestanicus luciferase