5npl - Revision history

OCA at 13:20, 15 November 2023

OCA — Wed, 15 Nov 2023 13:20:02 GMT

←Older revision		Revision as of 13:20, 15 November 2023
Line 1:		Line 1:

	==Crystal structure of hexameric CBS-CP12 protein from bloom-forming cyanobacteria, Yb-derivative at 2.8 A resolution==		==Crystal structure of hexameric CBS-CP12 protein from bloom-forming cyanobacteria, Yb-derivative at 2.8 A resolution==
-	<StructureSection load='5npl' size='340' side='right' caption='[[5npl]], [[Resolution\|resolution]] 2.79Å' scene=''>	+	<StructureSection load='5npl' size='340' side='right'caption='[[5npl]], [[Resolution\|resolution]] 2.79Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5npl]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Microcystis_aeruginosa_pcc_7806~~ Microcystis aeruginosa ~~pcc~~ 7806]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NPL OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5NPL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5npl]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Microcystis_aeruginosa_PCC_7806 Microcystis aeruginosa PCC 7806]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NPL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5NPL FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DO3:10-((2R)-2-HYDROXYPROPYL)-1,4,7,10-TETRAAZACYCLODODECANE+1,4,7-TRIACETIC+ACID'>DO3</scene>, <scene name='pdbligand=YB:YTTERBIUM+(III)+ION'>YB</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]] 2.79Å</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">IPF_2164 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=267872 Microcystis aeruginosa PCC 7806])</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DO3:10-((2R)-2-HYDROXYPROPYL)-1,4,7,10-TETRAAZACYCLODODECANE+1,4,7-TRIACETIC+ACID'>DO3</scene>, <scene name='pdbligand=YB:YTTERBIUM+(III)+ION'>YB</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=5npl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5npl OCA], [~~http~~://pdbe.org/5npl PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5npl RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5npl PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5npl 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=5npl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5npl OCA], [https://pdbe.org/5npl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5npl RCSB], [https://www.ebi.ac.uk/pdbsum/5npl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5npl ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A8YJ50_MICAE A8YJ50_MICAE]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Microcystis aeruginosa ~~pcc~~ 7806]]	+	[[Category: Large Structures]]
-	[[Category: Antonyuk~~, S V~~]]	+	[[Category: Microcystis aeruginosa PCC 7806]]
-	[[Category: Dittmann, E]]	+	[[Category: Antonyuk SV]]
-	[[Category: Hackenberg, C]]	+	[[Category: Dittmann E]]
-	[[Category: Hakanpaa, J]]	+	[[Category: Hackenberg C]]
-	[[Category: Lamzin~~, V S]]~~	+	[[Category: Hakanpaa J]]
-	~~[[Category: Cystathionine beta synthase domain]]~~	+	[[Category: Lamzin VS]]
-	~~[[Category: Fusion protein]]~~	+
-	~~[[Category: Photosynthesis]]~~	+
-	~~[[Category: Redox-regulation of photosynthesis~~]]	+

OCA at 06:04, 11 July 2018

OCA — Wed, 11 Jul 2018 06:04:45 GMT

←Older revision		Revision as of 06:04, 11 July 2018
Line 8:		Line 8:
	<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=5npl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5npl OCA], [http://pdbe.org/5npl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5npl RCSB], [http://www.ebi.ac.uk/pdbsum/5npl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5npl 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=5npl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5npl OCA], [http://pdbe.org/5npl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5npl RCSB], [http://www.ebi.ac.uk/pdbsum/5npl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5npl ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Cyanobacteria are important photosynthetic organisms inhabiting a range of dynamic environments. This phylum is distinctive among photosynthetic organisms in containing genes encoding uncharacterized cystathionine beta-synthase (CBS)-chloroplast protein (CP12) fusion proteins. These consist of two domains, each recognized as stand-alone photosynthetic regulators with different functions described in cyanobacteria (CP12) and plants (CP12 and CBSX). Here we show that CBS-CP12 fusion proteins are encoded in distinct gene neighborhoods, several unrelated to photosynthesis. Most frequently, CBS-CP12 genes are in a gene cluster with thioredoxin A (TrxA), which is prevalent in bloom-forming, marine symbiotic, and benthic mat cyanobacteria. Focusing on a CBS-CP12 from Microcystis aeruginosa PCC 7806 encoded in a gene cluster with TrxA, we reveal that the domain fusion led to the formation of a hexameric protein. We show that the CP12 domain is essential for hexamerization and contains an ordered, previously structurally uncharacterized N-terminal region. We provide evidence that CBS-CP12, while combining properties of both regulatory domains, behaves different from CP12 and plant CBSX. It does not form a ternary complex with phosphoribulokinase (PRK) and glyceraldehyde-3-phosphate dehydrogenase. Instead, CBS-CP12 decreases the activity of PRK in an AMP-dependent manner. We propose that the novel domain architecture and oligomeric state of CBS-CP12 expand its regulatory function beyond those of CP12 in cyanobacteria.
		+
		+	Structural and functional insights into the unique CBS-CP12 fusion protein family in cyanobacteria.,Hackenberg C, Hakanpaa J, Cai F, Antonyuk S, Eigner C, Meissner S, Laitaoja M, Janis J, Kerfeld CA, Dittmann E, Lamzin VS Proc Natl Acad Sci U S A. 2018 Jul 3;115(27):7141-7146. doi:, 10.1073/pnas.1806668115. Epub 2018 Jun 18. PMID:29915055<ref>PMID:29915055</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5npl" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 06:18, 20 June 2018

OCA — Wed, 20 Jun 2018 06:18:08 GMT

←Older revision		Revision as of 06:18, 20 June 2018
Line 3:		Line 3:
	<StructureSection load='5npl' size='340' side='right' caption='[[5npl]], [[Resolution\|resolution]] 2.79Å' scene=''>		<StructureSection load='5npl' size='340' side='right' caption='[[5npl]], [[Resolution\|resolution]] 2.79Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5npl]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NPL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NPL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5npl]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Microcystis_aeruginosa_pcc_7806 Microcystis aeruginosa pcc 7806]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NPL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NPL FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DO3:10-((2R)-2-HYDROXYPROPYL)-1,4,7,10-TETRAAZACYCLODODECANE+1,4,7-TRIACETIC+ACID'>DO3</scene>, <scene name='pdbligand=YB:YTTERBIUM+(III)+ION'>YB</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DO3:10-((2R)-2-HYDROXYPROPYL)-1,4,7,10-TETRAAZACYCLODODECANE+1,4,7-TRIACETIC+ACID'>DO3</scene>, <scene name='pdbligand=YB:YTTERBIUM+(III)+ION'>YB</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">IPF_2164 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=267872 Microcystis aeruginosa PCC 7806])</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=5npl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5npl OCA], [http://pdbe.org/5npl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5npl RCSB], [http://www.ebi.ac.uk/pdbsum/5npl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5npl 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=5npl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5npl OCA], [http://pdbe.org/5npl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5npl RCSB], [http://www.ebi.ac.uk/pdbsum/5npl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5npl ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Microcystis aeruginosa pcc 7806]]
	[[Category: Antonyuk, S V]]		[[Category: Antonyuk, S V]]
	[[Category: Dittmann, E]]		[[Category: Dittmann, E]]

OCA at 05:23, 30 May 2018

OCA — Wed, 30 May 2018 05:23:28 GMT

←Older revision		Revision as of 05:23, 30 May 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry 5npl is ON HOLD until Paper Publication~~	+	==Crystal structure of hexameric CBS-CP12 protein from bloom-forming cyanobacteria, Yb-derivative at 2.8 A resolution==
-		+	<StructureSection load='5npl' size='340' side='right' caption='[[5npl]], [[Resolution\|resolution]] 2.79Å' scene=''>
-	~~Authors: Hackenberg, C., Hakanpaa, J., Antonyuk, S.V., Dittmann, E., Lamzin, V.S.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5npl]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NPL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NPL FirstGlance]. <br>
-	~~Description:~~ Crystal structure of hexameric CBS-CP12 protein from bloom-forming cyanobacteria, Yb-derivative at 2.8 A resolution	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DO3:10-((2R)-2-HYDROXYPROPYL)-1,4,7,10-TETRAAZACYCLODODECANE+1,4,7-TRIACETIC+ACID'>DO3</scene>, <scene name='pdbligand=YB:YTTERBIUM+(III)+ION'>YB</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=5npl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5npl OCA], [http://pdbe.org/5npl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5npl RCSB], [http://www.ebi.ac.uk/pdbsum/5npl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5npl ProSAT]</span></td></tr>
-	[[Category: Antonyuk, S.V]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Antonyuk, S V]]
		+	[[Category: Dittmann, E]]
	[[Category: Hackenberg, C]]		[[Category: Hackenberg, C]]
	[[Category: Hakanpaa, J]]		[[Category: Hakanpaa, J]]
-	[[Category: ~~Dittmann~~, E]]	+	[[Category: Lamzin, V S]]
-	[[Category: ~~Lamzin, V.S~~]]	+	[[Category: Cystathionine beta synthase domain]]
		+	[[Category: Fusion protein]]
		+	[[Category: Photosynthesis]]
		+	[[Category: Redox-regulation of photosynthesis]]

OCA at 11:38, 27 September 2017

OCA — Wed, 27 Sep 2017 11:38:29 GMT

←Older revision		Revision as of 11:38, 27 September 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Hackenberg, C., Hakanpaa, J., Antonyuk, S.V., Dittmann, E., Lamzin, V.S.		Authors: Hackenberg, C., Hakanpaa, J., Antonyuk, S.V., Dittmann, E., Lamzin, V.S.

-	Description: Crystal structure ~~of Yb-Derivative~~ of hexameric CBS-CP12 protein from bloom-forming cyanobacteria at 2.8 A resolution	+	Description: Crystal structure of hexameric CBS-CP12 protein from bloom-forming cyanobacteria, Yb-derivative at 2.8 A resolution
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Antonyuk, S.V]]		[[Category: Antonyuk, S.V]]

OCA at 12:08, 17 May 2017

OCA — Wed, 17 May 2017 12:08:58 GMT

←Older revision		Revision as of 12:08, 17 May 2017
Line 5:		Line 5:
	Authors: Hackenberg, C., Hakanpaa, J., Antonyuk, S.V., Dittmann, E., Lamzin, V.S.		Authors: Hackenberg, C., Hakanpaa, J., Antonyuk, S.V., Dittmann, E., Lamzin, V.S.

-	Description: Crystal structure of hexameric CBS-CP12 protein from bloom-forming cyanobacteria at 2.8 A resolution	+	Description: Crystal structure of Yb-Derivative of hexameric CBS-CP12 protein from bloom-forming cyanobacteria at 2.8 A resolution
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Antonyuk, S.V]]		[[Category: Antonyuk, S.V]]

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

OCA — Thu, 27 Apr 2017 10:45:16 GMT

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

←Older revision

Revision as of 10:45, 27 April 2017

OCA: New page: '''Unreleased structure''' The entry 5npl is ON HOLD Authors: Hackenberg, C., Hakanpaa, J., Antonyuk, S.V., Dittmann, E., Lamzin, V.S. Description: Crystal structure of hexameric CBS-C...

OCA — Thu, 27 Apr 2017 10:45:15 GMT

New page: '''Unreleased structure''' The entry 5npl is ON HOLD Authors: Hackenberg, C., Hakanpaa, J., Antonyuk, S.V., Dittmann, E., Lamzin, V.S. Description: Crystal structure of hexameric CBS-C...

New page

'''Unreleased structure'''

The entry 5npl is ON HOLD

Authors: Hackenberg, C., Hakanpaa, J., Antonyuk, S.V., Dittmann, E., Lamzin, V.S.

Description: Crystal structure of hexameric CBS-CP12 protein from bloom-forming cyanobacteria at 2.8 A resolution
[[Category: Unreleased Structures]]
[[Category: Antonyuk, S.V]]
[[Category: Hackenberg, C]]
[[Category: Hakanpaa, J]]
[[Category: Dittmann, E]]
[[Category: Lamzin, V.S]]