5crv - Revision history

OCA at 16:11, 8 November 2023

OCA — Wed, 08 Nov 2023 16:11:23 GMT

←Older revision		Revision as of 16:11, 8 November 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5crv]] is a 4 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=5CRV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5CRV FirstGlance]. <br>		<table><tr><td colspan='2'>[[5crv]] is a 4 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=5CRV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5CRV FirstGlance]. <br>
-	</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>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.001Å</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'>[https://proteopedia.org/fgij/fg.htm?mol=5crv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5crv OCA], [https://pdbe.org/5crv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5crv RCSB], [https://www.ebi.ac.uk/pdbsum/5crv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5crv 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=5crv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5crv OCA], [https://pdbe.org/5crv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5crv RCSB], [https://www.ebi.ac.uk/pdbsum/5crv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5crv ProSAT]</span></td></tr>
	</table>		</table>

OCA at 12:25, 14 June 2023

OCA — Wed, 14 Jun 2023 12:25:26 GMT

←Older revision		Revision as of 12:25, 14 June 2023
Line 3:		Line 3:
	<StructureSection load='5crv' size='340' side='right'caption='[[5crv]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='5crv' size='340' side='right'caption='[[5crv]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5crv]] is a 4 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=5CRV OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5CRV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5crv]] is a 4 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=5CRV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5CRV 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" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5cru\|5cru]]</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=5crv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5crv OCA], [https://pdbe.org/5crv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5crv RCSB], [https://www.ebi.ac.uk/pdbsum/5crv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5crv ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PTPN23, KIAA1471 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protein-tyrosine-phosphatase Protein-tyrosine-phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.48 3.1.3.48] </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=5crv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5crv OCA], [~~http~~://pdbe.org/5crv PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5crv RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5crv PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5crv ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/PTN23_HUMAN PTN23_HUMAN]] Plays a role in sorting of endocytic ubiquitinated cargos into multivesicular bodies (MVBs) via its interaction with the ESCRT-I complex (endosomal sorting complex required for transport I), and possibly also other ESCRT complexes. May act as a negative regulator of Ras-mediated mitogenic activity. Plays a role in ciliogenesis.<ref>PMID:18434552</ref> <ref>PMID:20393563</ref> <ref>PMID:21757351</ref> [[http://www.uniprot.org/uniprot/STAM2_HUMAN STAM2_HUMAN]] Involved in intracellular signal transduction mediated by cytokines and growth factors. Upon IL-2 and GM-CSL stimulation, it plays a role in signaling leading to DNA synthesis and MYC induction. May also play a role in T-cell development. Involved in down-regulation of receptor tyrosine kinase via multivesicular body (MVBs) when complexed with HGS (ESCRT-0 complex). The ESCRT-0 complex binds ubiquitin and acts as sorting machinery that recognizes ubiquitinated receptors and transfers them to further sequential lysosomal sorting/trafficking processes (By similarity).	+	[https://www.uniprot.org/uniprot/PTN23_HUMAN PTN23_HUMAN] Plays a role in sorting of endocytic ubiquitinated cargos into multivesicular bodies (MVBs) via its interaction with the ESCRT-I complex (endosomal sorting complex required for transport I), and possibly also other ESCRT complexes. May act as a negative regulator of Ras-mediated mitogenic activity. Plays a role in ciliogenesis.<ref>PMID:18434552</ref> <ref>PMID:20393563</ref> <ref>PMID:21757351</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 28:		Line 25:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Protein-tyrosine-phosphatase]]~~	+	[[Category: Kim SJ]]
-	[[Category: Kim~~, S J~~]]	+	[[Category: Ku B]]
-	[[Category: Ku, B]]	+	[[Category: Lee J]]
-	[[Category: Lee, J]]	+
-	~~[[Category: Bro domain]]~~	+
-	~~[[Category: Egfr]]~~	+
-	~~[[Category: Escrt-0]]~~	+
-	~~[[Category: Hd-ptp]]~~	+
-	~~[[Category: Protein transport]]~~	+
-	~~[[Category: Stam2~~]]	+

OCA at 10:21, 1 April 2020

OCA — Wed, 01 Apr 2020 10:21:05 GMT

←Older revision		Revision as of 10:21, 1 April 2020
Line 1:		Line 1:

	==Crystal structure of the Bro domain of HD-PTP in a complex with the core region of STAM2==		==Crystal structure of the Bro domain of HD-PTP in a complex with the core region of STAM2==
-	<StructureSection load='5crv' size='340' side='right' caption='[[5crv]], [[Resolution\|resolution]] 2.00Å' scene=''>	+	<StructureSection load='5crv' size='340' side='right'caption='[[5crv]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5crv]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CRV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5CRV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5crv]] is a 4 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=5CRV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5CRV 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='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5cru\|5cru]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5cru\|5cru]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PTPN23, KIAA1471 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protein-tyrosine-phosphatase Protein-tyrosine-phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.48 3.1.3.48] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protein-tyrosine-phosphatase Protein-tyrosine-phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.48 3.1.3.48] </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=5crv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5crv OCA], [http://pdbe.org/5crv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5crv RCSB], [http://www.ebi.ac.uk/pdbsum/5crv PDBsum]</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=5crv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5crv OCA], [http://pdbe.org/5crv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5crv RCSB], [http://www.ebi.ac.uk/pdbsum/5crv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5crv ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 20:		Line 21:
	</div>		</div>
	<div class="pdbe-citations 5crv" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5crv" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Tyrosine phosphatase 3D structures\|Tyrosine phosphatase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Protein-tyrosine-phosphatase]]		[[Category: Protein-tyrosine-phosphatase]]
	[[Category: Kim, S J]]		[[Category: Kim, S J]]

OCA at 18:11, 26 February 2016

OCA — Fri, 26 Feb 2016 18:11:24 GMT

←Older revision		Revision as of 18:11, 26 February 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5crv is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Crystal structure of the Bro domain of HD-PTP in a complex with the core region of STAM2==
		+	<StructureSection load='5crv' size='340' side='right' caption='[[5crv]], [[Resolution\|resolution]] 2.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5crv]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CRV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5CRV 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>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5cru\|5cru]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protein-tyrosine-phosphatase Protein-tyrosine-phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.48 3.1.3.48] </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=5crv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5crv OCA], [http://pdbe.org/5crv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5crv RCSB], [http://www.ebi.ac.uk/pdbsum/5crv PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PTN23_HUMAN PTN23_HUMAN]] Plays a role in sorting of endocytic ubiquitinated cargos into multivesicular bodies (MVBs) via its interaction with the ESCRT-I complex (endosomal sorting complex required for transport I), and possibly also other ESCRT complexes. May act as a negative regulator of Ras-mediated mitogenic activity. Plays a role in ciliogenesis.<ref>PMID:18434552</ref> <ref>PMID:20393563</ref> <ref>PMID:21757351</ref> [[http://www.uniprot.org/uniprot/STAM2_HUMAN STAM2_HUMAN]] Involved in intracellular signal transduction mediated by cytokines and growth factors. Upon IL-2 and GM-CSL stimulation, it plays a role in signaling leading to DNA synthesis and MYC induction. May also play a role in T-cell development. Involved in down-regulation of receptor tyrosine kinase via multivesicular body (MVBs) when complexed with HGS (ESCRT-0 complex). The ESCRT-0 complex binds ubiquitin and acts as sorting machinery that recognizes ubiquitinated receptors and transfers them to further sequential lysosomal sorting/trafficking processes (By similarity).
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	EGFR is a key player in cell proliferation and survival signaling, and its sorting into MVBs for eventual lysosomal degradation is controlled by the coordination of multiple ESCRT complexes on the endosomal membrane. HD-PTP is a cytosolic protein tyrosine phosphatase, and is associated with EGFR trafficking by interacting with the ESCRT-0 protein STAM2 and the ESCRT-III protein CHMP4B via its N-terminal Bro1 domain. Intriguingly, the homologous domain of two other human Bro1 domain-containing proteins, Alix and Brox, binds CHMP4B but not STAM2, despite their high structural similarity. To elucidate this binding specificity, we determined the complex structure of the HD-PTP Bro1 domain bound to the STAM2 core region. STAM2 binds to the hydrophobic concave pocket of the HD-PTP Bro1 domain, as CHMP4B does to the pocket of Alix, Brox, or HD-PTP but in the opposite direction. Critically, Thr145 of HD-PTP, corresponding to Lys151 of Alix and Arg145 of Brox, is revealed to be a determinant residue enabling this protein to bind STAM2, as the Alix- or Brox-mimicking mutations of this residue blocks the intermolecular interaction. This work therefore provides the structural basis for how HD-PTP recognizes the ESCRT-0 component to control EGFR sorting.

-	~~Authors: Lee~~, J., Ku, B., Kim, S.J.	+	Structural Study of the HD-PTP Bro1 Domain in a Complex with the Core Region of STAM2, a Subunit of ESCRT-0.,Lee J, Oh KJ, Lee D, Kim BY, Choi JS, Ku B, Kim SJ PLoS One. 2016 Feb 11;11(2):e0149113. doi: 10.1371/journal.pone.0149113., eCollection 2016. PMID:26866605<ref>PMID:26866605</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: ~~Lee~~, J]]	+	<div class="pdbe-citations 5crv" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Protein-tyrosine-phosphatase]]
		+	[[Category: Kim, S J]]
	[[Category: Ku, B]]		[[Category: Ku, B]]
-	[[Category: ~~Kim~~, S.J]]	+	[[Category: Lee, J]]
		+	[[Category: Bro domain]]
		+	[[Category: Egfr]]
		+	[[Category: Escrt-0]]
		+	[[Category: Hd-ptp]]
		+	[[Category: Protein transport]]
		+	[[Category: Stam2]]

OCA at 10:41, 16 December 2015

OCA — Wed, 16 Dec 2015 10:41:46 GMT

←Older revision		Revision as of 10:41, 16 December 2015
Line 8:		Line 8:
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Lee, J]]		[[Category: Lee, J]]
-	[[Category: Kim, S.J]]
	[[Category: Ku, B]]		[[Category: Ku, B]]
		+	[[Category: Kim, S.J]]

OCA at 11:01, 20 August 2015

OCA — Thu, 20 Aug 2015 11:01:29 GMT

←Older revision		Revision as of 11:01, 20 August 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Lee, J., Ku, B., Kim, S.J.		Authors: Lee, J., Ku, B., Kim, S.J.

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

OCA — Wed, 29 Jul 2015 13:48:37 GMT

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

←Older revision

Revision as of 13:48, 29 July 2015

OCA: New page: '''Unreleased structure''' The entry 5crv is ON HOLD Authors: Lee, J., Ku, B., Kim, S.J. Description: Category: Unreleased Structures Category: Lee, J Category: Kim, S.J [...

OCA — Wed, 29 Jul 2015 13:48:36 GMT

New page: '''Unreleased structure''' The entry 5crv is ON HOLD Authors: Lee, J., Ku, B., Kim, S.J. Description: Category: Unreleased Structures Category: Lee, J Category: Kim, S.J [...

New page

'''Unreleased structure'''

The entry 5crv is ON HOLD

Authors: Lee, J., Ku, B., Kim, S.J.

Description:
[[Category: Unreleased Structures]]
[[Category: Lee, J]]
[[Category: Kim, S.J]]
[[Category: Ku, B]]