5wjk - Revision history

OCA at 14:15, 4 October 2023

2023-10-04T14:15:15Z

←Older revision		Revision as of 14:15, 4 October 2023
Line 3:		Line 3:
	<StructureSection load='5wjk' size='340' side='right'caption='[[5wjk]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='5wjk' size='340' side='right'caption='[[5wjk]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5wjk]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Phymc Phymc~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WJK OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5WJK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5wjk]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Physeter_catodon Physeter catodon]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WJK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5WJK FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</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]] 2Å</td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9755 PHYMC])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</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'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5wjk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wjk OCA], [~~http~~://pdbe.org/5wjk PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5wjk RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5wjk PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5wjk 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=5wjk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wjk OCA], [https://pdbe.org/5wjk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5wjk RCSB], [https://www.ebi.ac.uk/pdbsum/5wjk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5wjk ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~MYG_PHYCD MYG_PHYCD]~~] Serves as a reserve supply of oxygen and facilitates the movement of oxygen within muscles.	+	[https://www.uniprot.org/uniprot/MYG_PHYMC MYG_PHYMC] Serves as a reserve supply of oxygen and facilitates the movement of oxygen within muscles.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Phymc~~]]	+	[[Category: Physeter catodon]]
-	[[Category: Broecker, J]]	+	[[Category: Broecker J]]
-	[[Category: Ernst~~, O P~~]]	+	[[Category: Ernst OP]]
-	[[Category: Ou, W L]]	+	[[Category: Ou W-L]]
-	~~[[Category: Heme-bound]]~~	+
-	~~[[Category: Oxygen transport]]~~	+
-	~~[[Category: Soluble protein~~]]	+

OCA at 09:51, 1 January 2020

2020-01-01T09:51:48Z

←Older revision		Revision as of 09:51, 1 January 2020
Line 1:		Line 1:

	==2.0-Angstrom In situ Mylar structure of sperm whale myoglobin (SWMb) at 293 K==		==2.0-Angstrom In situ Mylar structure of sperm whale myoglobin (SWMb) at 293 K==
-	<StructureSection load='5wjk' size='340' side='right' caption='[[5wjk]], [[Resolution\|resolution]] 2.00Å' scene=''>	+	<StructureSection load='5wjk' size='340' side='right'caption='[[5wjk]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5wjk]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Phycd Phycd~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WJK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WJK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5wjk]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Phymc Phymc]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WJK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WJK FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</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"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9755 ~~PHYCD~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9755 PHYMC])</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=5wjk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wjk OCA], [http://pdbe.org/5wjk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wjk RCSB], [http://www.ebi.ac.uk/pdbsum/5wjk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wjk 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=5wjk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wjk OCA], [http://pdbe.org/5wjk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wjk RCSB], [http://www.ebi.ac.uk/pdbsum/5wjk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wjk ProSAT]</span></td></tr>
	</table>		</table>
Line 19:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 5wjk" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5wjk" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Myoglobin 3D structures\|Myoglobin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Phycd~~]]	+	[[Category: Large Structures]]
		+	[[Category: Phymc]]
	[[Category: Broecker, J]]		[[Category: Broecker, J]]
	[[Category: Ernst, O P]]		[[Category: Ernst, O P]]

OCA at 08:17, 17 January 2018

2018-01-17T08:17:38Z

←Older revision		Revision as of 08:17, 17 January 2018
Line 3:		Line 3:
	<StructureSection load='5wjk' size='340' side='right' caption='[[5wjk]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='5wjk' size='340' side='right' caption='[[5wjk]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5wjk]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WJK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WJK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5wjk]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Phycd Phycd]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WJK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WJK FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</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"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9755 PHYCD])</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=5wjk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wjk OCA], [http://pdbe.org/5wjk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wjk RCSB], [http://www.ebi.ac.uk/pdbsum/5wjk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wjk 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=5wjk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wjk OCA], [http://pdbe.org/5wjk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wjk RCSB], [http://www.ebi.ac.uk/pdbsum/5wjk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wjk ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/MYG_PHYCD MYG_PHYCD]] Serves as a reserve supply of oxygen and facilitates the movement of oxygen within muscles.		[[http://www.uniprot.org/uniprot/MYG_PHYCD MYG_PHYCD]] Serves as a reserve supply of oxygen and facilitates the movement of oxygen within muscles.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Protein crystallography has significantly advanced in recent years, with in situ data collection, in which crystals are placed in the X-ray beam within their growth medium, being a major point of focus. In situ methods eliminate the need to harvest crystals, a previously unavoidable drawback, particularly for often small membrane-protein crystals. Here, we present a protocol for the high-throughput in situ X-ray screening of and data collection from soluble and membrane-protein crystals at room temperature (20-25 degrees C) and under cryogenic conditions. The Mylar in situ method uses Mylar-based film sandwich plates that are inexpensive, easy to make, and compatible with automated imaging, and that show very low background scattering. They support crystallization in microbatch and vapor-diffusion modes, as well as in lipidic cubic phases (LCPs). A set of 3D-printed holders for differently sized patches of Mylar sandwich films makes the method robust and versatile, allows for storage and shipping of crystals, and enables automated mounting at synchrotrons, as well as goniometer-based screening and data collection. The protocol covers preparation of in situ plates and setup of crystallization trials; 3D printing and assembly of holders; opening of plates, isolation of film patches containing crystals, and loading them onto holders; basic screening and data-collection guidelines; and unloading of holders, as well as reuse and recycling of them. In situ plates are prepared and assembled in 1 h; holders are 3D-printed and assembled in </=90 min; and an in situ plate is opened, and a film patch containing crystals is isolated and loaded onto a holder in 5 min.
		+
		+	High-throughput in situ X-ray screening of and data collection from protein crystals at room temperature and under cryogenic conditions.,Broecker J, Morizumi T, Ou WL, Klingel V, Kuo A, Kissick DJ, Ishchenko A, Lee MY, Xu S, Makarov O, Cherezov V, Ogata CM, Ernst OP Nat Protoc. 2018 Feb;13(2):260-292. doi: 10.1038/nprot.2017.135. Epub 2018 Jan 4. PMID:29300389<ref>PMID:29300389</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5wjk" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Phycd]]
	[[Category: Broecker, J]]		[[Category: Broecker, J]]
	[[Category: Ernst, O P]]		[[Category: Ernst, O P]]

OCA at 06:59, 13 December 2017

2017-12-13T06:59:02Z

←Older revision		Revision as of 06:59, 13 December 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5wjk is ~~ON HOLD until Paper Publication~~	+	==2.0-Angstrom In situ Mylar structure of sperm whale myoglobin (SWMb) at 293 K==
-		+	<StructureSection load='5wjk' size='340' side='right' caption='[[5wjk]], [[Resolution\|resolution]] 2.00Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5wjk]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WJK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WJK FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=5wjk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wjk OCA], [http://pdbe.org/5wjk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wjk RCSB], [http://www.ebi.ac.uk/pdbsum/5wjk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wjk ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/MYG_PHYCD MYG_PHYCD]] Serves as a reserve supply of oxygen and facilitates the movement of oxygen within muscles.
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Broecker, J]]
		+	[[Category: Ernst, O P]]
		+	[[Category: Ou, W L]]
		+	[[Category: Heme-bound]]
		+	[[Category: Oxygen transport]]
		+	[[Category: Soluble protein]]

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

2017-09-27T14:53:53Z

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

←Older revision

Revision as of 14:53, 27 September 2017

OCA: New page: '''Unreleased structure''' The entry 5wjk is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

2017-09-27T14:53:52Z

New page: '''Unreleased structure''' The entry 5wjk is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5wjk is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]