3qyi - Revision history

OCA: Replacing page with 'REMOVED: The PDB entry 3qyi was removed.'

2015-07-15T13:10:57Z

Replacing page with 'REMOVED: The PDB entry 3qyi was removed.'

←Older revision		Revision as of 13:10, 15 July 2015
Line 1:		Line 1:
-	~~==MAP kinase ERK2 complexed with 1,1-Dioxo-2,3-dihydrothiophen-3-yl benzenesulfonate==~~	+	REMOVED: The PDB entry 3qyi was removed.
-	~~<StructureSection load='3qyi' size='340' side='right' caption='[[3qyi]], [[Resolution\|resolution]] 2.18Å' scene=''>~~	+
-	~~== Structural highlights ==~~	+
-	~~<table><tr><td colspan='2'>[[3qyi]] is a 1 chain structure with sequence from [http~~://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QYI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3QYI FirstGlance]. <br>	+
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=Q23:(3R)-1,1-DIOXIDO-2,3-DIHYDROTHIOPHEN-3-YL+BENZENESULFONATE'>Q23</scene></td></tr>	+
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Mapk1, Erk2, Mapk, Prkm1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Rattus norvegicus])</td></tr>	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Mitogen-activated_protein_kinase Mitogen-activated protein kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.11.24 2.7.11.24] </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=~~3qyi ~~FirstGlance], [http://oca~~.~~weizmann.ac.il/oca-bin/ocaids?id=3qyi OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3qyi RCSB], [http://www.ebi.ac.uk/pdbsum/3qyi PDBsum]</span></td></tr>~~	+
-	~~</table>~~	+
-	~~== Function ==~~	+
-	[[http://www.uniprot.org/uniprot/MK01_RAT MK01_RAT]] Serine/threonine kinase which acts as an essential component of the MAP kinase signal transduction pathway. MAPK1/ERK2 and MAPK3/ERK1 are the 2 MAPKs which play an important role in the MAPK/ERK cascade. They participate also in a signaling cascade initiated by activated KIT and KITLG/SCF. Depending on the cellular context, the MAPK/ERK cascade mediates diverse biological functions such as cell growth, adhesion, survival and differentiation through the regulation of transcription, translation, cytoskeletal rearrangements. The MAPK/ERK cascade plays also a role in initiation and regulation of meiosis, mitosis, and postmitotic functions in differentiated cells by phosphorylating a number of transcription factors. About 160 substrates have already been discovered for ERKs. Many of these substrates are localized in the nucleus, and seem to participate in the regulation of transcription upon stimulation. However, other substrates are found in the cytosol as well as in other cellular organelles, and those are responsible for processes such as translation, mitosis and apoptosis. Moreover, the MAPK/ERK cascade is also involved in the regulation of the endosomal dynamics, including lysosome processing and endosome cycling through the perinuclear recycling compartment (PNRC); as well as in the fragmentation of the Golgi apparatus during mitosis. The substrates include transcription factors (such as ATF2, BCL6, ELK1, ERF, FOS, HSF4 or SPZ1), cytoskeletal elements (such as CANX, CTTN, GJA1, MAP2, MAPT, PXN, SORBS3 or STMN1), regulators of apoptosis (such as BAD, BTG2, CASP9, DAPK1, IER3, MCL1 or PPARG), regulators of translation (such as EIF4EBP1) and a variety of other signaling-related molecules (like ARHGEF2, DCC, FRS2 or GRB10). Protein kinases (such as RAF1, RPS6KA1/RSK1, RPS6KA3/RSK2, RPS6KA2/RSK3, RPS6KA6/RSK4, SYK, MKNK1/MNK1, MKNK2/MNK2, RPS6KA5/MSK1, RPS6KA4/MSK2, MAPKAPK3 or MAPKAPK5) and phosphatases (such as DUSP1, DUSP4, DUSP6 or DUSP16) are other substrates which enable the propagation the MAPK/ERK signal to additional cytosolic and nuclear targets, thereby extending the specificity of the cascade. May play a role in the spindle assembly checkpoint.<ref>PMID:21070949</ref> Acts as a transcriptional repressor. Binds to a [GC]AAA[GC] consensus sequence. Repress the expression of interferon gamma-induced genes. Seems to bind to the promoter of CCL5, DMP1, IFIH1, IFITM1, IRF7, IRF9, LAMP3, OAS1, OAS2, OAS3 and STAT1. Transcriptional activity is independent of kinase activity (By similarity).<ref>PMID:21070949</ref>	+
-		+
-	~~==See Also==~~	+
-	*[[Mitogen-activated protein kinase\|Mitogen-activated protein kinase]]	+
-	~~== References ==~~	+
-	~~<references/>~~	+
-	~~__TOC__~~	+
-	~~</StructureSection>~~	+
-	~~[[Category: Mitogen-activated protein kinase]]~~	+
-	~~[[Category: Rattus norvegicus]]~~	+
-	~~[[Category: Pozharski, E]]~~	+
-	~~[[Category: Shapiro, P]]~~	+
-	~~[[Category: Zhang, J]]~~	+
-	~~[[Category: Kinase]]~~	+
-	~~[[Category: Transferase]]~~	+

OCA at 02:40, 25 December 2014

2014-12-25T02:40:07Z

←Older revision		Revision as of 02:40, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3qyi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QYI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3QYI FirstGlance]. <br>		<table><tr><td colspan='2'>[[3qyi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QYI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3QYI FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=Q23:(3R)-1,1-DIOXIDO-2,3-DIHYDROTHIOPHEN-3-YL+BENZENESULFONATE'>Q23</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=Q23:(3R)-1,1-DIOXIDO-2,3-DIHYDROTHIOPHEN-3-YL+BENZENESULFONATE'>Q23</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Mapk1, Erk2, Mapk, Prkm1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Rattus norvegicus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Mapk1, Erk2, Mapk, Prkm1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Rattus norvegicus])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Mitogen-activated_protein_kinase Mitogen-activated protein kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.11.24 2.7.11.24] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Mitogen-activated_protein_kinase Mitogen-activated protein kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.11.24 2.7.11.24] </span></td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3qyi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qyi OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3qyi RCSB], [http://www.ebi.ac.uk/pdbsum/3qyi 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=3qyi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qyi OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3qyi RCSB], [http://www.ebi.ac.uk/pdbsum/3qyi PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/MK01_RAT MK01_RAT]] Serine/threonine kinase which acts as an essential component of the MAP kinase signal transduction pathway. MAPK1/ERK2 and MAPK3/ERK1 are the 2 MAPKs which play an important role in the MAPK/ERK cascade. They participate also in a signaling cascade initiated by activated KIT and KITLG/SCF. Depending on the cellular context, the MAPK/ERK cascade mediates diverse biological functions such as cell growth, adhesion, survival and differentiation through the regulation of transcription, translation, cytoskeletal rearrangements. The MAPK/ERK cascade plays also a role in initiation and regulation of meiosis, mitosis, and postmitotic functions in differentiated cells by phosphorylating a number of transcription factors. About 160 substrates have already been discovered for ERKs. Many of these substrates are localized in the nucleus, and seem to participate in the regulation of transcription upon stimulation. However, other substrates are found in the cytosol as well as in other cellular organelles, and those are responsible for processes such as translation, mitosis and apoptosis. Moreover, the MAPK/ERK cascade is also involved in the regulation of the endosomal dynamics, including lysosome processing and endosome cycling through the perinuclear recycling compartment (PNRC); as well as in the fragmentation of the Golgi apparatus during mitosis. The substrates include transcription factors (such as ATF2, BCL6, ELK1, ERF, FOS, HSF4 or SPZ1), cytoskeletal elements (such as CANX, CTTN, GJA1, MAP2, MAPT, PXN, SORBS3 or STMN1), regulators of apoptosis (such as BAD, BTG2, CASP9, DAPK1, IER3, MCL1 or PPARG), regulators of translation (such as EIF4EBP1) and a variety of other signaling-related molecules (like ARHGEF2, DCC, FRS2 or GRB10). Protein kinases (such as RAF1, RPS6KA1/RSK1, RPS6KA3/RSK2, RPS6KA2/RSK3, RPS6KA6/RSK4, SYK, MKNK1/MNK1, MKNK2/MNK2, RPS6KA5/MSK1, RPS6KA4/MSK2, MAPKAPK3 or MAPKAPK5) and phosphatases (such as DUSP1, DUSP4, DUSP6 or DUSP16) are other substrates which enable the propagation the MAPK/ERK signal to additional cytosolic and nuclear targets, thereby extending the specificity of the cascade. May play a role in the spindle assembly checkpoint.<ref>PMID:21070949</ref> Acts as a transcriptional repressor. Binds to a [GC]AAA[GC] consensus sequence. Repress the expression of interferon gamma-induced genes. Seems to bind to the promoter of CCL5, DMP1, IFIH1, IFITM1, IRF7, IRF9, LAMP3, OAS1, OAS2, OAS3 and STAT1. Transcriptional activity is independent of kinase activity (By similarity).<ref>PMID:21070949</ref>

	==See Also==		==See Also==
	*[[Mitogen-activated protein kinase\|Mitogen-activated protein kinase]]		*[[Mitogen-activated protein kinase\|Mitogen-activated protein kinase]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 04:40, 5 June 2014

2014-06-05T04:40:40Z

←Older revision		Revision as of 04:40, 5 June 2014
Line 1:		Line 1:
-	[[~~Image:~~3qyi.~~jpg~~\|~~left~~\|~~200px~~]]	+	==MAP kinase ERK2 complexed with 1,1-Dioxo-2,3-dihydrothiophen-3-yl benzenesulfonate==
		+	<StructureSection load='3qyi' size='340' side='right' caption='[[3qyi]], [[Resolution\|resolution]] 2.18Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3qyi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QYI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3QYI FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=Q23:(3R)-1,1-DIOXIDO-2,3-DIHYDROTHIOPHEN-3-YL+BENZENESULFONATE'>Q23</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Mapk1, Erk2, Mapk, Prkm1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Rattus norvegicus])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Mitogen-activated_protein_kinase Mitogen-activated protein kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.11.24 2.7.11.24] </span></td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3qyi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qyi OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3qyi RCSB], [http://www.ebi.ac.uk/pdbsum/3qyi PDBsum]</span></td></tr>
		+	<table>

-	~~<!--~~	+	==See Also==
-	~~The line below this paragraph, containing "STRUCTURE_3qyi", creates the "Structure Box" on the page.~~	+	*[[Mitogen-activated protein kinase\|Mitogen-activated protein kinase]]
-	~~You may change the PDB parameter (which sets the PDB file loaded into the applet)~~	+	__TOC__
-	~~or the SCENE parameter (which sets the initial scene displayed when the page is loaded),~~	+	</StructureSection>
-	~~or leave the SCENE parameter empty for the default display.~~	+
-	~~-->~~	+
-	~~{{STRUCTURE_3qyi\| PDB~~=~~3qyi \| SCENE= }}~~	+
-		+
-	~~===MAP kinase ERK2 complexed with 1,1-Dioxo-2,3-dihydrothiophen-3-yl benzenesulfonate~~===	+
-		+
-		+
-	~~==About this Structure==~~	+
-	[[~~3qyi~~]] ~~is a 1 chain structure with sequence from [http:~~/~~/en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QYI OCA].~~	+
	[[Category: Mitogen-activated protein kinase]]		[[Category: Mitogen-activated protein kinase]]
	[[Category: Rattus norvegicus]]		[[Category: Rattus norvegicus]]

OCA at 09:19, 25 April 2012

2012-04-25T09:19:42Z

←Older revision		Revision as of 09:19, 25 April 2012
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3qyi.jpg\|left\|200px]]

-	The ~~entry 3qyi~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3qyi", creates the "Structure Box" on the page.
		+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
		+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
		+	or leave the SCENE parameter empty for the default display.
		+	-->
		+	{{STRUCTURE_3qyi\| PDB=3qyi \| SCENE= }}

-	~~Authors: Zhang~~, J, ~~Shapiro, P, Pozharski, E~~	+	===MAP kinase ERK2 complexed with 1,1-Dioxo-2,3-dihydrothiophen-3-yl benzenesulfonate===

-	~~Description: MAP kinase ERK2 complexed with 1,~~1-~~Dioxo~~-2,~~3-dihydrothiophen-3-yl benzenesulfonate~~	+
		+	==About this Structure==
		+	[[3qyi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QYI OCA].
		+	[[Category: Mitogen-activated protein kinase]]
		+	[[Category: Rattus norvegicus]]
		+	[[Category: Pozharski, E]]
		+	[[Category: Shapiro, P]]
		+	[[Category: Zhang, J]]
		+	[[Category: Kinase]]
		+	[[Category: Transferase]]

OCA at 10:18, 21 April 2011

2011-04-21T10:18:37Z

←Older revision		Revision as of 10:18, 21 April 2011
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3qyi is ON HOLD	+	The entry 3qyi is ON HOLD until Paper Publication

	Authors: Zhang, J, Shapiro, P, Pozharski, E		Authors: Zhang, J, Shapiro, P, Pozharski, E

	Description: MAP kinase ERK2 complexed with 1,1-Dioxo-2,3-dihydrothiophen-3-yl benzenesulfonate		Description: MAP kinase ERK2 complexed with 1,1-Dioxo-2,3-dihydrothiophen-3-yl benzenesulfonate

OCA: Protected "3qyi" [edit=sysop:move=sysop]

2011-03-09T06:11:15Z

Protected "3qyi" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:11, 9 March 2011

OCA: New page: '''Unreleased structure''' The entry 3qyi is ON HOLD Authors: Zhang, J, Shapiro, P, Pozharski, E Description: MAP kinase ERK2 complexed with 1,1-Dioxo-2,3-dihydrothiophen-3-yl benzenes...

2011-03-09T06:11:12Z

New page: '''Unreleased structure''' The entry 3qyi is ON HOLD Authors: Zhang, J, Shapiro, P, Pozharski, E Description: MAP kinase ERK2 complexed with 1,1-Dioxo-2,3-dihydrothiophen-3-yl benzenes...

New page

'''Unreleased structure'''

The entry 3qyi is ON HOLD

Authors: Zhang, J, Shapiro, P, Pozharski, E

Description: MAP kinase ERK2 complexed with 1,1-Dioxo-2,3-dihydrothiophen-3-yl benzenesulfonate