6j2m - Revision history

OCA at 09:58, 22 November 2023

2023-11-22T09:58:49Z

←Older revision		Revision as of 09:58, 22 November 2023
Line 3:		Line 3:
	<StructureSection load='6j2m' size='340' side='right'caption='[[6j2m]], [[Resolution\|resolution]] 1.13Å' scene=''>		<StructureSection load='6j2m' size='340' side='right'caption='[[6j2m]], [[Resolution\|resolution]] 1.13Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6j2m]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Arath Arath~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6J2M OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6J2M FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6j2m]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6J2M OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6J2M 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=FK5:8-DEETHYL-8-~~[~~BUT-3-ENYL~~]~~-ASCOMYCIN'>FK5</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]] 1.13Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>FKBP53, At4g25340, T30C3_20 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~3702 ARATH])</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=FK5:8-DEETHYL-8-[BUT-3-ENYL]-ASCOMYCIN'>FK5</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks'>[http~~:~~//en.wikipedia.org/wiki/Peptidylprolyl_isomerase Peptidylprolyl isomerase], with EC number~~ [~~http://www.brenda~~-~~enzymes.info/php/result_flat.php4?ecno=5.2.1.8 5.2.1.8~~] </~~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=6j2m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6j2m OCA], [https://pdbe.org/6j2m PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6j2m RCSB], [https://www.ebi.ac.uk/pdbsum/6j2m PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6j2m 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=6j2m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6j2m OCA], [~~http~~://pdbe.org/6j2m PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6j2m RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6j2m PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6j2m ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/FKB53_ARATH FKB53_ARATH]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Arath~~]]	+	[[Category: Arabidopsis thaliana]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Peptidylprolyl isomerase]]~~	+	[[Category: Singh AK]]
-	[[Category: Singh~~, A K~~]]	+	[[Category: Vasudevan D]]
-	[[Category: Vasudevan, D]]	+
-	~~[[Category: Chaperone]]~~	+
-	~~[[Category: Fkbp]]~~	+
-	~~[[Category: Immunophilin]]~~	+
-	~~[[Category: Isomerase]]~~	+
-	~~[[Category: Ppiase]]~~	+
-	~~[[Category: Prolyl isomerase~~]]	+

OCA at 10:47, 18 December 2019

2019-12-18T10:47:20Z

←Older revision		Revision as of 10:47, 18 December 2019
Line 3:		Line 3:
	<StructureSection load='6j2m' size='340' side='right'caption='[[6j2m]], [[Resolution\|resolution]] 1.13Å' scene=''>		<StructureSection load='6j2m' size='340' side='right'caption='[[6j2m]], [[Resolution\|resolution]] 1.13Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6j2m]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6J2M OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6J2M FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6j2m]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Arath Arath]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6J2M OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6J2M 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=FK5:8-DEETHYL-8-[BUT-3-ENYL]-ASCOMYCIN'>FK5</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=FK5:8-DEETHYL-8-[BUT-3-ENYL]-ASCOMYCIN'>FK5</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">FKBP53, At4g25340, T30C3_20 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peptidylprolyl_isomerase Peptidylprolyl isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.2.1.8 5.2.1.8] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peptidylprolyl_isomerase Peptidylprolyl isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.2.1.8 5.2.1.8] </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=6j2m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6j2m OCA], [http://pdbe.org/6j2m PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6j2m RCSB], [http://www.ebi.ac.uk/pdbsum/6j2m PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6j2m 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=6j2m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6j2m OCA], [http://pdbe.org/6j2m PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6j2m RCSB], [http://www.ebi.ac.uk/pdbsum/6j2m PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6j2m ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	FKBP53 is one of the seven multi-domain FK506-binding proteins present in Arabidopsis thaliana, and it is known to get targeted to the nucleus. It has a conserved PPIase domain at the C-terminus and a highly charged N-terminal stretch, which has been reported to bind to histone H3 and perform the function of a histone chaperone. To better understand the molecular details of this PPIase with histone chaperoning activity, we have solved the crystal structures of its terminal domains and functionally characterized them. The C-terminal domain showed strong PPIase activity, no role in histone chaperoning and revealed a monomeric five-beta palm-like fold that wrapped over a helix, typical of an FK506-binding domain. The N-terminal domain had a pentameric nucleoplasmin-fold; making this the first report of a plant nucleoplasmin structure. Further characterization revealed the N-terminal nucleoplasmin domain to interact with H2A/H2B and H3/H4 histone oligomers, individually, as well as simultaneously, suggesting two different binding sites for H2A/H2B and H3/H4. The pentameric domain assists nucleosome assembly and forms a discrete complex with pre-formed nucleosomes; wherein two pentamers bind to a nucleosome.
		+
		+	AtFKBP53: a chimeric histone chaperone with functional nucleoplasmin and PPIase domains.,Singh AK, Datta A, Jobichen C, Luan S, Vasudevan D Nucleic Acids Res. 2019 Dec 6. pii: 5661091. doi: 10.1093/nar/gkz1153. PMID:31807785<ref>PMID:31807785</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6j2m" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Arath]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Peptidylprolyl isomerase]]		[[Category: Peptidylprolyl isomerase]]

OCA at 08:00, 4 December 2019

2019-12-04T08:00:28Z

←Older revision		Revision as of 08:00, 4 December 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6j2m ~~is ON HOLD until Paper Publication~~	+	==Crystal structure of AtFKBP53 C-terminal domain==
-		+	<StructureSection load='6j2m' size='340' side='right'caption='[[6j2m]], [[Resolution\|resolution]] 1.13Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6j2m]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6J2M OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6J2M 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=FK5:8-DEETHYL-8-[BUT-3-ENYL]-ASCOMYCIN'>FK5</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peptidylprolyl_isomerase Peptidylprolyl isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.2.1.8 5.2.1.8] </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=6j2m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6j2m OCA], [http://pdbe.org/6j2m PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6j2m RCSB], [http://www.ebi.ac.uk/pdbsum/6j2m PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6j2m ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Peptidylprolyl isomerase]]
		+	[[Category: Singh, A K]]
		+	[[Category: Vasudevan, D]]
		+	[[Category: Chaperone]]
		+	[[Category: Fkbp]]
		+	[[Category: Immunophilin]]
		+	[[Category: Isomerase]]
		+	[[Category: Ppiase]]
		+	[[Category: Prolyl isomerase]]

OCA at 05:23, 6 March 2019

2019-03-06T05:23:22Z

←Older revision		Revision as of 05:23, 6 March 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6j2m is ON HOLD	+	The entry 6j2m is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6j2m" [edit=sysop:move=sysop]

2019-01-09T04:57:36Z

Protected "6j2m" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:57, 9 January 2019

OCA: New page: '''Unreleased structure''' The entry 6j2m is ON HOLD Authors: Description: Category: Unreleased Structures

2019-01-09T04:57:35Z

New page: '''Unreleased structure''' The entry 6j2m is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6j2m is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]