3k0a - Revision history

OCA at 08:07, 6 September 2023

OCA — Wed, 06 Sep 2023 08:07:09 GMT

←Older revision		Revision as of 08:07, 6 September 2023
Line 3:		Line 3:
	<StructureSection load='3k0a' size='340' side='right'caption='[[3k0a]], [[Resolution\|resolution]] 3.00Å' scene=''>		<StructureSection load='3k0a' size='340' side='right'caption='[[3k0a]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3k0a]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Anacystis_nidulans_r2 Anacystis nidulans r2~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K0A OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3K0A FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3k0a]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Synechococcus_elongatus_PCC_7942_=_FACHB-805 Synechococcus elongatus PCC 7942 = FACHB-805]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K0A OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3K0A FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ATP:ADENOSINE~~-~~5-TRIPHOSPHATE'>ATP</scene>~~, ~~<scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 3Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~TPO~~:~~PHOSPHOTHREONINE~~'>~~TPO~~</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TPO:PHOSPHOTHREONINE'>TPO</scene></td></tr>
-	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;~~'>~~[[3dvl\|3dvl]], [[3jzm\|3jzm]], [[3k09\|3k09]], [[3k0c\|3k0c]], [[3k0e\|3k0e]], [[3k0f\|3k0f]]~~</~~div~~>~~</td></tr>~~	+
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">kaic~~, ~~see0011, Synpcc7942_1216 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1140 Anacystis nidulans R2])~~<~~/td></tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>[https://en.wikipedia.org/wiki/Non-specific_serine/threonine_protein_kinase Non-specific serine/threonine protein kinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.11.1 2.7.11.1] </~~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=3k0a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k0a OCA], [https://pdbe.org/3k0a PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3k0a RCSB], [https://www.ebi.ac.uk/pdbsum/3k0a PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3k0a 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=3k0a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k0a OCA], [https://pdbe.org/3k0a PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3k0a RCSB], [https://www.ebi.ac.uk/pdbsum/3k0a PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3k0a ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/KAIC_SYNE7 KAIC_SYNE7]] Core component of the KaiABC clock protein complex, which constitutes the main circadian regulator in cyanobacteria. Binds to DNA. The KaiABC complex may act as a promoter-nonspecific transcription regulator that represses transcription, possibly by acting on the state of chromosome compaction.<ref>PMID:9727980</ref> <ref>PMID:14709675</ref>	+	[https://www.uniprot.org/uniprot/KAIC_SYNE7 KAIC_SYNE7] Core component of the KaiABC clock protein complex, which constitutes the main circadian regulator in cyanobacteria. Binds to DNA. The KaiABC complex may act as a promoter-nonspecific transcription regulator that represses transcription, possibly by acting on the state of chromosome compaction.<ref>PMID:9727980</ref> <ref>PMID:14709675</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Anacystis nidulans r2]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Non~~-~~specific serine/threonine protein kinase~~]]	+	[[Category: Synechococcus elongatus PCC 7942 = FACHB-805]]
-	[[Category: Egli, M]]	+	[[Category: Egli M]]
-	[[Category: Pattanayek, R]]	+	[[Category: Pattanayek R]]
-	[[Category: Pattanayek, S]]	+	[[Category: Pattanayek S]]
-	~~[[Category: Atp-binding]]~~	+
-	~~[[Category: Biological rhythm]]~~	+
-	~~[[Category: Circadian clock protein]]~~	+
-	~~[[Category: Dna-binding]]~~	+
-	~~[[Category: Hexamer]]~~	+
-	~~[[Category: Kaic]]~~	+
-	~~[[Category: Kinase]]~~	+
-	~~[[Category: Magnesium]]~~	+
-	~~[[Category: Metal-binding]]~~	+
-	~~[[Category: Nucleotide-binding]]~~	+
-	~~[[Category: Phosphoprotein]]~~	+
-	~~[[Category: Repressor]]~~	+
-	~~[[Category: Serine/threonine-protein kinase]]~~	+
-	~~[[Category: Transcription]]~~	+
-	~~[[Category: Transcription regulation]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 12:19, 13 October 2021

OCA — Wed, 13 Oct 2021 12:19:34 GMT

←Older revision		Revision as of 12:19, 13 October 2021
Line 1:		Line 1:

	==Crystal structure of the phosphorylation-site mutant S431A of the KaiC circadian clock protein==		==Crystal structure of the phosphorylation-site mutant S431A of the KaiC circadian clock protein==
-	<StructureSection load='3k0a' size='340' side='right' caption='[[3k0a]], [[Resolution\|resolution]] 3.00Å' scene=''>	+	<StructureSection load='3k0a' size='340' side='right'caption='[[3k0a]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3k0a]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Anacystis_nidulans_r2 Anacystis nidulans r2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K0A OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3K0A FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3k0a]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Anacystis_nidulans_r2 Anacystis nidulans r2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K0A OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3K0A FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=TPO:PHOSPHOTHREONINE'>TPO</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=TPO:PHOSPHOTHREONINE'>TPO</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3dvl\|3dvl]], [[3jzm\|3jzm]], [[3k09\|3k09]], [[3k0c\|3k0c]], [[3k0e\|3k0e]], [[3k0f\|3k0f]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3dvl\|3dvl]], [[3jzm\|3jzm]], [[3k09\|3k09]], [[3k0c\|3k0c]], [[3k0e\|3k0e]], [[3k0f\|3k0f]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">kaic, see0011, Synpcc7942_1216 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1140 Anacystis nidulans R2])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">kaic, see0011, Synpcc7942_1216 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1140 Anacystis nidulans R2])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Non-specific_serine/threonine_protein_kinase Non-specific serine/threonine protein kinase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.11.1 2.7.11.1] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Non-specific_serine/threonine_protein_kinase Non-specific serine/threonine protein kinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.11.1 2.7.11.1] </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=3k0a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k0a OCA], [~~http~~://pdbe.org/3k0a PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3k0a RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3k0a PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3k0a 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=3k0a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k0a OCA], [https://pdbe.org/3k0a PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3k0a RCSB], [https://www.ebi.ac.uk/pdbsum/3k0a PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3k0a ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/KAIC_SYNE7 KAIC_SYNE7]] Core component of the KaiABC clock protein complex, which constitutes the main circadian regulator in cyanobacteria. Binds to DNA. The KaiABC complex may act as a promoter-nonspecific transcription regulator that represses transcription, possibly by acting on the state of chromosome compaction.<ref>PMID:9727980</ref> <ref>PMID:14709675</ref>	+	[[https://www.uniprot.org/uniprot/KAIC_SYNE7 KAIC_SYNE7]] Core component of the KaiABC clock protein complex, which constitutes the main circadian regulator in cyanobacteria. Binds to DNA. The KaiABC complex may act as a promoter-nonspecific transcription regulator that represses transcription, possibly by acting on the state of chromosome compaction.<ref>PMID:9727980</ref> <ref>PMID:14709675</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 34:

	==See Also==		==See Also==
-	*[[Circadian clock protein\|Circadian clock protein]]	+	*[[Circadian clock protein 3D structures\|Circadian clock protein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 40:		Line 40:
	</StructureSection>		</StructureSection>
	[[Category: Anacystis nidulans r2]]		[[Category: Anacystis nidulans r2]]
		+	[[Category: Large Structures]]
	[[Category: Non-specific serine/threonine protein kinase]]		[[Category: Non-specific serine/threonine protein kinase]]
	[[Category: Egli, M]]		[[Category: Egli, M]]

OCA at 09:30, 26 December 2018

OCA — Wed, 26 Dec 2018 09:30:31 GMT

←Older revision		Revision as of 09:30, 26 December 2018
Line 17:		Line 17:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/k0/3k0a_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/k0/3k0a_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>

OCA at 15:06, 5 August 2016

OCA — Fri, 05 Aug 2016 15:06:56 GMT

←Older revision		Revision as of 15:06, 5 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of the phosphorylation-site mutant S431A of the KaiC circadian clock protein==		==Crystal structure of the phosphorylation-site mutant S431A of the KaiC circadian clock protein==
	<StructureSection load='3k0a' size='340' side='right' caption='[[3k0a]], [[Resolution\|resolution]] 3.00Å' scene=''>		<StructureSection load='3k0a' size='340' side='right' caption='[[3k0a]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3k0a]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Synechococcus_elongatus_pcc_7942 Synechococcus elongatus pcc 7942~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K0A OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3K0A FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3k0a]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Anacystis_nidulans_r2 Anacystis nidulans r2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K0A OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3K0A FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=TPO:PHOSPHOTHREONINE'>TPO</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=TPO:PHOSPHOTHREONINE'>TPO</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3dvl\|3dvl]], [[3jzm\|3jzm]], [[3k09\|3k09]], [[3k0c\|3k0c]], [[3k0e\|3k0e]], [[3k0f\|3k0f]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3dvl\|3dvl]], [[3jzm\|3jzm]], [[3k09\|3k09]], [[3k0c\|3k0c]], [[3k0e\|3k0e]], [[3k0f\|3k0f]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">kaic, see0011, Synpcc7942_1216 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1140 ~~Synechococcus elongatus PCC 7942~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">kaic, see0011, Synpcc7942_1216 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1140 Anacystis nidulans R2])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Non-specific_serine/threonine_protein_kinase Non-specific serine/threonine protein kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.11.1 2.7.11.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Non-specific_serine/threonine_protein_kinase Non-specific serine/threonine protein kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.11.1 2.7.11.1] </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=3k0a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k0a OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3k0a RCSB], [http://www.ebi.ac.uk/pdbsum/3k0a 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=3k0a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k0a OCA], [http://pdbe.org/3k0a PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3k0a RCSB], [http://www.ebi.ac.uk/pdbsum/3k0a PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3k0a ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 20:		Line 21:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3k0a ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 30:		Line 31:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 3k0a" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 37:		Line 39:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Anacystis nidulans r2]]
	[[Category: Non-specific serine/threonine protein kinase]]		[[Category: Non-specific serine/threonine protein kinase]]
-	[[Category: Synechococcus elongatus pcc 7942]]
	[[Category: Egli, M]]		[[Category: Egli, M]]
	[[Category: Pattanayek, R]]		[[Category: Pattanayek, R]]

OCA at 19:48, 25 December 2014

OCA — Thu, 25 Dec 2014 19:48:46 GMT

←Older revision		Revision as of 19:48, 25 December 2014
Line 10:		Line 10:
	<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=3k0a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k0a OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3k0a RCSB], [http://www.ebi.ac.uk/pdbsum/3k0a 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=3k0a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k0a OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3k0a RCSB], [http://www.ebi.ac.uk/pdbsum/3k0a PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/KAIC_SYNE7 KAIC_SYNE7]] Core component of the KaiABC clock protein complex, which constitutes the main circadian regulator in cyanobacteria. Binds to DNA. The KaiABC complex may act as a promoter-nonspecific transcription regulator that represses transcription, possibly by acting on the state of chromosome compaction.<ref>PMID:9727980</ref> <ref>PMID:14709675</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 16:17, 18 December 2014

OCA — Thu, 18 Dec 2014 16:17:43 GMT

←Older revision		Revision as of 16:17, 18 December 2014
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-	~~{{STRUCTURE_3k0a\| PDB=3k0a \| SCENE= }}~~	+	==Crystal structure of the phosphorylation-site mutant S431A of the KaiC circadian clock protein==
-	===Crystal structure of the phosphorylation-site mutant S431A of the KaiC circadian clock protein===	+	<StructureSection load='3k0a' size='340' side='right' caption='[[3k0a]], [[Resolution\|resolution]] 3.00Å' scene=''>
-	~~{{ABSTRACT_PUBMED_19956664}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3k0a]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Synechococcus_elongatus_pcc_7942 Synechococcus elongatus pcc 7942]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K0A OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3K0A FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=TPO:PHOSPHOTHREONINE'>TPO</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3dvl\|3dvl]], [[3jzm\|3jzm]], [[3k09\|3k09]], [[3k0c\|3k0c]], [[3k0e\|3k0e]], [[3k0f\|3k0f]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">kaic, see0011, Synpcc7942_1216 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1140 Synechococcus elongatus PCC 7942])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Non-specific_serine/threonine_protein_kinase Non-specific serine/threonine protein kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.11.1 2.7.11.1] </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=3k0a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k0a OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3k0a RCSB], [http://www.ebi.ac.uk/pdbsum/3k0a PDBsum]</span></td></tr>
		+	</table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/k0/3k0a_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	BACKGROUND: The circadian clock of the cyanobacterium Synechococcus elongatus can be reconstituted in vitro by three proteins, KaiA, KaiB and KaiC. Homo-hexameric KaiC displays kinase, phosphatase and ATPase activities; KaiA enhances KaiC phosphorylation and KaiB antagonizes KaiA. Phosphorylation and dephosphorylation of the two known sites in the C-terminal half of KaiC subunits, T432 and S431, follow a strict order (TS-->pTS-->pTpS-->TpS-->TS) over the daily cycle, the origin of which is not understood. To address this void and to analyze the roles of KaiC active site residues, in particular T426, we determined structures of single and double P-site mutants of S. elongatus KaiC. METHODOLOGY AND PRINCIPAL FINDINGS: The conformations of the loop region harboring P-site residues T432 and S431 in the crystal structures of six KaiC mutant proteins exhibit subtle differences that result in various distances between Thr (or Ala/Asn/Glu) and Ser (or Ala/Asp) residues and the ATP gamma-phosphate. T432 is phosphorylated first because it lies consistently closer to Pgamma. The structures of the S431A and T432E/S431A mutants reveal phosphorylation at T426. The environments of the latter residue in the structures and functional data for T426 mutants in vitro and in vivo imply a role in dephosphorylation. CONCLUSIONS AND SIGNIFICANCE: We provide evidence for a third phosphorylation site in KaiC at T426. T426 and S431 are closely spaced and a KaiC subunit cannot carry phosphates at both sites simultaneously. Fewer subunits are phosphorylated at T426 in the two KaiC mutants compared to phosphorylated T432 and/or S431 residues in the structures of wt and other mutant KaiCs, suggesting that T426 phosphorylation may be labile. The structures combined with functional data for a host of KaiC mutant proteins help rationalize why S431 trails T432 in the loss of its phosphate and shed light on the mechanisms of the KaiC kinase, ATPase and phosphatase activities.

-	~~==Function==~~	+	Structures of KaiC circadian clock mutant proteins: a new phosphorylation site at T426 and mechanisms of kinase, ATPase and phosphatase.,Pattanayek R, Mori T, Xu Y, Pattanayek S, Johnson CH, Egli M PLoS One. 2009 Nov 26;4(11):e7529. PMID:19956664<ref>PMID:19956664</ref>
-	~~[[http~~:~~//www.uniprot.org/uniprot/KAIC_SYNE7 KAIC_SYNE7]] Core component~~ of ~~the KaiABC clock protein complex~~, ~~which constitutes the main circadian regulator in cyanobacteria~~. ~~Binds to DNA. The KaiABC complex may act as a promoter-nonspecific transcription regulator that represses transcription~~, ~~possibly by acting on the state of chromosome compaction~~.~~<ref>~~PMID:~~9727980</ref>~~<ref>PMID:~~14709675~~</ref>	+

-	~~==About this Structure==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[3k0a]] is~~ a ~~6 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Synechococcus_elongatus_pcc_7942 Synechococcus elongatus pcc 7942]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3K0A OCA].~~	+	</div>

	==See Also==		==See Also==
	*[[Circadian clock protein\|Circadian clock protein]]		*[[Circadian clock protein\|Circadian clock protein]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	~~<ref group="xtra">PMID:019956664</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Non-specific serine/threonine protein kinase]]		[[Category: Non-specific serine/threonine protein kinase]]
	[[Category: Synechococcus elongatus pcc 7942]]		[[Category: Synechococcus elongatus pcc 7942]]
-	[[Category: Egli, M.]]	+	[[Category: Egli, M]]
-	[[Category: Pattanayek, R.]]	+	[[Category: Pattanayek, R]]
-	[[Category: Pattanayek, S.]]	+	[[Category: Pattanayek, S]]
	[[Category: Atp-binding]]		[[Category: Atp-binding]]
	[[Category: Biological rhythm]]		[[Category: Biological rhythm]]

OCA: Protected "3k0a" [edit=sysop:move=sysop]

OCA — Wed, 27 Mar 2013 09:22:24 GMT

Protected "3k0a" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:22, 27 March 2013

OCA at 09:22, 27 March 2013

OCA — Wed, 27 Mar 2013 09:22:20 GMT

←Older revision		Revision as of 09:22, 27 March 2013
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-	{{Seed}}
-	[[Image:3k0a.jpg\|left\|200px]]
-
-	<!--
-	The line below this paragraph, containing "STRUCTURE_3k0a", 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_3k0a\| PDB=3k0a \| SCENE= }}		{{STRUCTURE_3k0a\| PDB=3k0a \| SCENE= }}
-
	===Crystal structure of the phosphorylation-site mutant S431A of the KaiC circadian clock protein===		===Crystal structure of the phosphorylation-site mutant S431A of the KaiC circadian clock protein===
		+	{{ABSTRACT_PUBMED_19956664}}

		+	==Function==
		+	[[http://www.uniprot.org/uniprot/KAIC_SYNE7 KAIC_SYNE7]] Core component of the KaiABC clock protein complex, which constitutes the main circadian regulator in cyanobacteria. Binds to DNA. The KaiABC complex may act as a promoter-nonspecific transcription regulator that represses transcription, possibly by acting on the state of chromosome compaction.<ref>PMID:9727980</ref><ref>PMID:14709675</ref>

-	~~<!--~~	+	==About this Structure==
-	~~The line below~~ this ~~paragraph, {{ABSTRACT_PUBMED_19956664}}, adds the Publication Abstract to the page~~	+	[[3k0a]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Synechococcus_elongatus_pcc_7942 Synechococcus elongatus pcc 7942]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K0A OCA].
-	~~(as it appears on PubMed at~~ http://~~www~~.~~pubmed~~.~~gov), where 19956664~~ is ~~the PubMed ID number~~.	+
-	-->	+
-	~~{{ABSTRACT_PUBMED_19956664}}~~	+

-	==~~About this Structure~~==	+	==See Also==
-	~~3K0A is a 6 chains structure with sequences from~~ [~~http://en.wikipedia.org/wiki/Synechococcus_elongatus_pcc_7942 Synechococcus elongatus pcc 7942~~]~~. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K0A OCA~~].	+	*[[Circadian clock protein\|Circadian clock protein]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~19956664~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019956664</ref><references group="xtra"/><references/>
	[[Category: Non-specific serine/threonine protein kinase]]		[[Category: Non-specific serine/threonine protein kinase]]
	[[Category: Synechococcus elongatus pcc 7942]]		[[Category: Synechococcus elongatus pcc 7942]]
Line 45:		Line 35:
	[[Category: Transcription regulation]]		[[Category: Transcription regulation]]
	[[Category: Transferase]]		[[Category: Transferase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Mar 31 13:41:47 2010''

OCA at 10:41, 31 March 2010

OCA — Wed, 31 Mar 2010 10:41:49 GMT

←Older revision		Revision as of 10:41, 31 March 2010
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3k0a.jpg\|left\|200px]]

-	The ~~entry 3k0a~~ is ~~ON HOLD~~ ~~until Mar 24 2011~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3k0a", 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_3k0a\| PDB=3k0a \| SCENE= }}

-	~~Authors: Pattanayek, R., Egli, M., Pattanayek, S.~~	+	===Crystal structure of the phosphorylation-site mutant S431A of the KaiC circadian clock protein===

-	Description: Crystal structure of the phosphorylation-site mutant S431A of the KaiC circadian clock protein

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Oct 28 12~~:56:~~32 2009~~''	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_19956664}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 19956664 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_19956664}}
		+
		+	==About this Structure==
		+	3K0A is a 6 chains structure with sequences from [http://en.wikipedia.org/wiki/Synechococcus_elongatus_pcc_7942 Synechococcus elongatus pcc 7942]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K0A OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:19956664</ref><references group="xtra"/>
		+	[[Category: Non-specific serine/threonine protein kinase]]
		+	[[Category: Synechococcus elongatus pcc 7942]]
		+	[[Category: Egli, M.]]
		+	[[Category: Pattanayek, R.]]
		+	[[Category: Pattanayek, S.]]
		+	[[Category: Atp-binding]]
		+	[[Category: Biological rhythm]]
		+	[[Category: Circadian clock protein]]
		+	[[Category: Dna-binding]]
		+	[[Category: Hexamer]]
		+	[[Category: Kaic]]
		+	[[Category: Kinase]]
		+	[[Category: Magnesium]]
		+	[[Category: Metal-binding]]
		+	[[Category: Nucleotide-binding]]
		+	[[Category: Phosphoprotein]]
		+	[[Category: Repressor]]
		+	[[Category: Serine/threonine-protein kinase]]
		+	[[Category: Transcription]]
		+	[[Category: Transcription regulation]]
		+	[[Category: Transferase]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Mar 31 13:41:47 2010''

OCA at 10:56, 28 October 2009

OCA — Wed, 28 Oct 2009 10:56:33 GMT

←Older revision		Revision as of 10:56, 28 October 2009
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3k0a is ON HOLD until ~~sometime in the future~~	+	The entry 3k0a is ON HOLD until Mar 24 2011

-	Authors: Pattanayek, R. , Egli, M. , Pattanayek, S.	+	Authors: Pattanayek, R., Egli, M., Pattanayek, S.

	Description: Crystal structure of the phosphorylation-site mutant S431A of the KaiC circadian clock protein		Description: Crystal structure of the phosphorylation-site mutant S431A of the KaiC circadian clock protein

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Oct ~~21 10~~:00:08 2009''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Oct 28 12:56:32 2009''