5whf - Revision history

OCA at 14:12, 4 October 2023

OCA — Wed, 04 Oct 2023 14:12:58 GMT

←Older revision		Revision as of 14:12, 4 October 2023
Line 3:		Line 3:
	<StructureSection load='5whf' size='340' side='right'caption='[[5whf]], [[Resolution\|resolution]] 2.25Å' scene=''>		<StructureSection load='5whf' size='340' side='right'caption='[[5whf]], [[Resolution\|resolution]] 2.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5whf]] is a 8 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WHF OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5WHF FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5whf]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WHF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5WHF FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=GOL:GLYCEROL'>GOL</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]] 2.25Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~VIM ([http~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</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=5whf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5whf OCA], [~~http~~://pdbe.org/5whf PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5whf RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5whf PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5whf 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=5whf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5whf OCA], [https://pdbe.org/5whf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5whf RCSB], [https://www.ebi.ac.uk/pdbsum/5whf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5whf ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/VIME_HUMAN VIME_HUMAN]] Vimentins are class-III intermediate filaments found in various non-epithelial cells, especially mesenchymal cells. Vimentin is attached to the nucleus, endoplasmic reticulum, and mitochondria, either laterally or terminally.<ref>PMID:21746880</ref> Involved with LARP6 in the stabilization of type I collagen mRNAs for CO1A1 and CO1A2.<ref>PMID:21746880</ref>	+	[https://www.uniprot.org/uniprot/VIME_HUMAN VIME_HUMAN] Vimentins are class-III intermediate filaments found in various non-epithelial cells, especially mesenchymal cells. Vimentin is attached to the nucleus, endoplasmic reticulum, and mitochondria, either laterally or terminally.<ref>PMID:21746880</ref> Involved with LARP6 in the stabilization of type I collagen mRNAs for CO1A1 and CO1A2.<ref>PMID:21746880</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Obiero~~, J M~~]]	+	[[Category: Obiero JM]]
-	[[Category: Pang~~, A H~~]]	+	[[Category: Pang AH]]
-	[[Category: Tsodikov~~, O V]]~~	+	[[Category: Tsodikov OV]]
-	~~[[Category: Coiled coil]]~~	+
-	~~[[Category: Helical domain]]~~	+
-	~~[[Category: Intermediate filament]]~~	+
-	~~[[Category: Oligomerization]]~~	+
-	~~[[Category: Structural protein~~]]	+

OCA at 09:41, 4 December 2019

OCA — Wed, 04 Dec 2019 09:41:15 GMT

←Older revision		Revision as of 09:41, 4 December 2019
Line 1:		Line 1:

	==Crystal structure of vimentin coil 1B packed in a high-order filamentous form==		==Crystal structure of vimentin coil 1B packed in a high-order filamentous form==
-	<StructureSection load='5whf' size='340' side='right' caption='[[5whf]], [[Resolution\|resolution]] 2.25Å' scene=''>	+	<StructureSection load='5whf' size='340' side='right'caption='[[5whf]], [[Resolution\|resolution]] 2.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5whf]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WHF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WHF FirstGlance]. <br>		<table><tr><td colspan='2'>[[5whf]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WHF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WHF FirstGlance]. <br>
Line 24:		Line 24:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Obiero, J M]]		[[Category: Obiero, J M]]
	[[Category: Pang, A H]]		[[Category: Pang, A H]]

OCA at 05:50, 27 June 2018

OCA — Wed, 27 Jun 2018 05:50:51 GMT

←Older revision		Revision as of 05:50, 27 June 2018
Line 3:		Line 3:
	<StructureSection load='5whf' size='340' side='right' caption='[[5whf]], [[Resolution\|resolution]] 2.25Å' scene=''>		<StructureSection load='5whf' size='340' side='right' caption='[[5whf]], [[Resolution\|resolution]] 2.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5whf]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WHF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WHF FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5whf]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WHF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WHF FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">VIM ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=5whf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5whf OCA], [http://pdbe.org/5whf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5whf RCSB], [http://www.ebi.ac.uk/pdbsum/5whf PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5whf 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=5whf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5whf OCA], [http://pdbe.org/5whf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5whf RCSB], [http://www.ebi.ac.uk/pdbsum/5whf PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5whf ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/VIME_HUMAN VIME_HUMAN]] Vimentins are class-III intermediate filaments found in various non-epithelial cells, especially mesenchymal cells. Vimentin is attached to the nucleus, endoplasmic reticulum, and mitochondria, either laterally or terminally.<ref>PMID:21746880</ref> Involved with LARP6 in the stabilization of type I collagen mRNAs for CO1A1 and CO1A2.<ref>PMID:21746880</ref>		[[http://www.uniprot.org/uniprot/VIME_HUMAN VIME_HUMAN]] Vimentins are class-III intermediate filaments found in various non-epithelial cells, especially mesenchymal cells. Vimentin is attached to the nucleus, endoplasmic reticulum, and mitochondria, either laterally or terminally.<ref>PMID:21746880</ref> Involved with LARP6 in the stabilization of type I collagen mRNAs for CO1A1 and CO1A2.<ref>PMID:21746880</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Vimentin is an intermediate filament (IF) protein that is expressed in leukocytes, fibroblasts and endothelial cells of blood vessels. Vimentin filaments contribute to structural stability of the cell membrane, organelle positioning and protein transport. Vimentin self-assembles into a dimer that subsequently forms high-order structures, including tetramers and octamers. The details of IF assembly at crystallographic resolutions are limited to the tetrameric form. We describe a crystal structure of a fragment of a vimentin rod domain (coil 1B) with a dimer of tetramers in the asymmetric unit. Coil 1B in the crystal is in an infinitely high-order filamentous assembly state, in which the tetramers are packed against each other laterally in an antiparallel fashion across the crystal lattice. In one of the directions of lateral packing, the tetramers pack against each other strictly head-to-tail, and in the orthogonal direction the tetramers pack in a staggered manner. This organization of the tetramers of coil 1B in the crystal lattice, together with previously reported biochemical and structural data, yield a model of high-order vimentin filament assembly. DATABASE: Structural data are available in the PDB under the accession number 5WHF.
		+
		+	A crystal structure of coil 1B of vimentin in the filamentous form provides a model of a high-order assembly of a vimentin filament.,Pang AH, Obiero JM, Kulczyk AW, Sviripa VM, Tsodikov OV FEBS J. 2018 Jun 15. doi: 10.1111/febs.14585. PMID:29905014<ref>PMID:29905014</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5whf" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
	[[Category: Obiero, J M]]		[[Category: Obiero, J M]]
	[[Category: Pang, A H]]		[[Category: Pang, A H]]

OCA at 05:41, 20 June 2018

OCA — Wed, 20 Jun 2018 05:41:11 GMT

←Older revision		Revision as of 05:41, 20 June 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5whf is ~~ON HOLD~~ ~~until Paper Publication~~	+	==Crystal structure of vimentin coil 1B packed in a high-order filamentous form==
-		+	<StructureSection load='5whf' size='340' side='right' caption='[[5whf]], [[Resolution\|resolution]] 2.25Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5whf]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WHF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WHF FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</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=5whf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5whf OCA], [http://pdbe.org/5whf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5whf RCSB], [http://www.ebi.ac.uk/pdbsum/5whf PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5whf ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/VIME_HUMAN VIME_HUMAN]] Vimentins are class-III intermediate filaments found in various non-epithelial cells, especially mesenchymal cells. Vimentin is attached to the nucleus, endoplasmic reticulum, and mitochondria, either laterally or terminally.<ref>PMID:21746880</ref> Involved with LARP6 in the stabilization of type I collagen mRNAs for CO1A1 and CO1A2.<ref>PMID:21746880</ref>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Obiero, J M]]
		+	[[Category: Pang, A H]]
		+	[[Category: Tsodikov, O V]]
		+	[[Category: Coiled coil]]
		+	[[Category: Helical domain]]
		+	[[Category: Intermediate filament]]
		+	[[Category: Oligomerization]]
		+	[[Category: Structural protein]]

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

OCA — Wed, 27 Sep 2017 14:49:30 GMT

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

←Older revision

Revision as of 14:49, 27 September 2017

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

OCA — Wed, 27 Sep 2017 14:49:29 GMT

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

New page

'''Unreleased structure'''

The entry 5whf is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]