5wr6 - Revision history

OCA at 16:51, 8 November 2023

2023-11-08T16:51:50Z

←Older revision		Revision as of 16:51, 8 November 2023
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	<StructureSection load='5wr6' size='340' side='right'caption='[[5wr6]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='5wr6' size='340' side='right'caption='[[5wr6]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5wr6]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WR6 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5WR6 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5wr6]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WR6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5WR6 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NX6:N-[(BENZYLOXY)CARBONYL]-L-ASPARTIC+ACID'>NX6</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]] 2.3Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5wr5\|5wr5]], [[5wr4\|5wr4]], [[5wr3\|5wr3]], [[5wr2\|5wr2]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NX6:N-[(BENZYLOXY)CARBONYL]-L-ASPARTIC+ACID'>NX6</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Thermolysin Thermolysin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.24.27 3.4.24.27] </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=5wr6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wr6 OCA], [https://pdbe.org/5wr6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5wr6 RCSB], [https://www.ebi.ac.uk/pdbsum/5wr6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5wr6 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=5wr6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wr6 OCA], [~~http~~://pdbe.org/5wr6 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5wr6 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5wr6 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5wr6 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/THER_GEOSE THER_GEOSE]] Extracellular zinc metalloprotease.<ref>PMID:3149972</ref>	+	[https://www.uniprot.org/uniprot/THER_GEOSE THER_GEOSE] Extracellular zinc metalloprotease.<ref>PMID:3149972</ref>
	<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: Geobacillus stearothermophilus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Thermolysin]]~~	+	[[Category: Kunishima N]]
-	[[Category: Kunishima, N]]	+	[[Category: Matsuura Y]]
-	[[Category: Matsuura, Y]]	+	[[Category: Naitow H]]
-	[[Category: Naitow, H]]	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Microcrystal]]~~	+
-	~~[[Category: Serial femtosecond crystallography]]~~	+
-	~~[[Category: Structure-based drug design]]~~	+
-	~~[[Category: X-ray free-electron laser~~]]	+

OCA at 07:14, 7 October 2020

2020-10-07T07:14:53Z

←Older revision		Revision as of 07:14, 7 October 2020
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	==Thermolysin, liganded form with cryo condition 2==		==Thermolysin, liganded form with cryo condition 2==
-	<StructureSection load='5wr6' size='340' side='right' caption='[[5wr6]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='5wr6' size='340' side='right'caption='[[5wr6]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5wr6]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WR6 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5WR6 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5wr6]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WR6 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5WR6 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NX6:N-[(BENZYLOXY)CARBONYL]-L-ASPARTIC+ACID'>NX6</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=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NX6:N-[(BENZYLOXY)CARBONYL]-L-ASPARTIC+ACID'>NX6</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5wr5\|5wr5]], [[5wr4\|5wr4]], [[5wr3\|5wr3]], [[5wr2\|5wr2]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5wr5\|5wr5]], [[5wr4\|5wr4]], [[5wr3\|5wr3]], [[5wr2\|5wr2]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Thermolysin Thermolysin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.24.27 3.4.24.27] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Thermolysin Thermolysin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.24.27 3.4.24.27] </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=5wr6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wr6 OCA], [http://pdbe.org/5wr6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wr6 RCSB], [http://www.ebi.ac.uk/pdbsum/5wr6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wr6 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=5wr6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wr6 OCA], [http://pdbe.org/5wr6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wr6 RCSB], [http://www.ebi.ac.uk/pdbsum/5wr6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wr6 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 22:		Line 22:

	==See Also==		==See Also==
-	*[[Thermolysin\|Thermolysin]]	+	*[[Thermolysin 3D structures\|Thermolysin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Thermolysin]]		[[Category: Thermolysin]]
	[[Category: Kunishima, N]]		[[Category: Kunishima, N]]

OCA at 00:20, 16 November 2017

2017-11-16T00:20:16Z

←Older revision		Revision as of 00:20, 16 November 2017
Line 20:		Line 20:
	</div>		</div>
	<div class="pdbe-citations 5wr6" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5wr6" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Thermolysin\|Thermolysin]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 06:06, 17 August 2017

2017-08-17T06:06:52Z

←Older revision		Revision as of 06:06, 17 August 2017
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-	'''Unreleased structure'''

-	~~The entry~~ 5wr6 is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Thermolysin, liganded form with cryo condition 2==
		+	<StructureSection load='5wr6' size='340' side='right' caption='[[5wr6]], [[Resolution\|resolution]] 2.30Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5wr6]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WR6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WR6 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NX6:N-[(BENZYLOXY)CARBONYL]-L-ASPARTIC+ACID'>NX6</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5wr5\|5wr5]], [[5wr4\|5wr4]], [[5wr3\|5wr3]], [[5wr2\|5wr2]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Thermolysin Thermolysin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.24.27 3.4.24.27] </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=5wr6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wr6 OCA], [http://pdbe.org/5wr6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wr6 RCSB], [http://www.ebi.ac.uk/pdbsum/5wr6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wr6 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/THER_GEOSE THER_GEOSE]] Extracellular zinc metalloprotease.<ref>PMID:3149972</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Serial femtosecond crystallography (SFX) with an X-ray free-electron laser is used for the structural determination of proteins from a large number of microcrystals at room temperature. To examine the feasibility of pharmaceutical applications of SFX, a ligand-soaking experiment using thermolysin microcrystals has been performed using SFX. The results were compared with those from a conventional experiment with synchrotron radiation (SR) at 100 K. A protein-ligand complex structure was successfully obtained from an SFX experiment using microcrystals soaked with a small-molecule ligand; both oil-based and water-based crystal carriers gave essentially the same results. In a comparison of the SFX and SR structures, clear differences were observed in the unit-cell parameters, in the alternate conformation of side chains, in the degree of water coordination and in the ligand-binding mode.

-	~~Authors: Kunishima, N~~., Naitow, H., Matsuura, Y.	+	Protein-ligand complex structure from serial femtosecond crystallography using soaked thermolysin microcrystals and comparison with structures from synchrotron radiation.,Naitow H, Matsuura Y, Tono K, Joti Y, Kameshima T, Hatsui T, Yabashi M, Tanaka R, Tanaka T, Sugahara M, Kobayashi J, Nango E, Iwata S, Kunishima N Acta Crystallogr D Struct Biol. 2017 Aug 1;73(Pt 8):702-709. doi:, 10.1107/S2059798317008919. Epub 2017 Jul 31. PMID:28777085<ref>PMID:28777085</ref>

-	~~Description: Thermolysin~~, ~~liganded form with cryo condition 2~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category: Unreleased Structures]]~~	+	</div>
-	~~[[Category~~: ~~Naitow, H]]~~	+	<div class="pdbe-citations 5wr6" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Matsuura, Y~~]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Thermolysin]]
	[[Category: Kunishima, N]]		[[Category: Kunishima, N]]
		+	[[Category: Matsuura, Y]]
		+	[[Category: Naitow, H]]
		+	[[Category: Hydrolase]]
		+	[[Category: Microcrystal]]
		+	[[Category: Serial femtosecond crystallography]]
		+	[[Category: Structure-based drug design]]
		+	[[Category: X-ray free-electron laser]]

OCA at 19:47, 15 March 2017

2017-03-15T19:47:58Z

←Older revision		Revision as of 19:47, 15 March 2017
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	Description: Thermolysin, liganded form with cryo condition 2		Description: Thermolysin, liganded form with cryo condition 2
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
		+	[[Category: Naitow, H]]
	[[Category: Matsuura, Y]]		[[Category: Matsuura, Y]]
	[[Category: Kunishima, N]]		[[Category: Kunishima, N]]
-	[[Category: Naitow, H]]

OCA at 15:46, 4 January 2017

2017-01-04T15:46:58Z

←Older revision		Revision as of 15:46, 4 January 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5wr6 is ON HOLD	+	The entry 5wr6 is ON HOLD until Paper Publication

	Authors: Kunishima, N., Naitow, H., Matsuura, Y.		Authors: Kunishima, N., Naitow, H., Matsuura, Y.

OCA: Protected "5wr6" [edit=sysop:move=sysop]

2016-12-09T18:19:01Z

Protected "5wr6" [edit=sysop:move=sysop]

←Older revision

Revision as of 18:19, 9 December 2016

OCA: New page: '''Unreleased structure''' The entry 5wr6 is ON HOLD Authors: Kunishima, N., Naitow, H., Matsuura, Y. Description: Thermolysin, liganded form with cryo condition 2 [[Category: Unreleas...

2016-12-09T18:19:00Z

New page: '''Unreleased structure''' The entry 5wr6 is ON HOLD Authors: Kunishima, N., Naitow, H., Matsuura, Y. Description: Thermolysin, liganded form with cryo condition 2 [[Category: Unreleas...

New page

'''Unreleased structure'''

The entry 5wr6 is ON HOLD

Authors: Kunishima, N., Naitow, H., Matsuura, Y.

Description: Thermolysin, liganded form with cryo condition 2
[[Category: Unreleased Structures]]
[[Category: Matsuura, Y]]
[[Category: Kunishima, N]]
[[Category: Naitow, H]]