5mki - Revision history

OCA at 10:24, 17 January 2024

OCA — Wed, 17 Jan 2024 10:24:39 GMT

←Older revision		Revision as of 10:24, 17 January 2024
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	==See Also==		==See Also==
-	*[[Sm-like protein\|Sm-like protein]]	+	*[[Sm-like protein 3D structures\|Sm-like protein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 18:48, 1 November 2023

OCA — Wed, 01 Nov 2023 18:48:08 GMT

←Older revision		Revision as of 18:48, 1 November 2023
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	<StructureSection load='5mki' size='340' side='right'caption='[[5mki]], [[Resolution\|resolution]] 2.05Å' scene=''>		<StructureSection load='5mki' size='340' side='right'caption='[[5mki]], [[Resolution\|resolution]] 2.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5mki]] is a 14 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Metvs Metvs~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MKI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5MKI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5mki]] is a 14 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanococcus_vannielii_SB Methanococcus vannielii SB]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MKI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5MKI FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>~~, ~~<scene name='pdbligand=EPE:4-(~~2~~-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</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]] 2.048Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~Mevan_0470 ([https~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=406327 METVS]~~)</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</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=5mki FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mki OCA], [https://pdbe.org/5mki PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5mki RCSB], [https://www.ebi.ac.uk/pdbsum/5mki PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5mki 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=5mki FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mki OCA], [https://pdbe.org/5mki PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5mki RCSB], [https://www.ebi.ac.uk/pdbsum/5mki PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5mki ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A6UPF5_METVS A6UPF5_METVS]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Metvs~~]]	+	[[Category: Methanococcus vannielii SB]]
-	[[Category: Lekontseva~~, N V~~]]	+	[[Category: Lekontseva NV]]
-	[[Category: Nikulin~~, A D~~]]	+	[[Category: Nikulin AD]]
-	[[Category: Tishchenko~~, S V]]~~	+	[[Category: Tishchenko SV]]
-	~~[[Category: Lsm]]~~	+
-	~~[[Category: Rna binding protein]]~~	+
-	~~[[Category: Smap~~]]	+

OCA at 14:51, 3 March 2021

OCA — Wed, 03 Mar 2021 14:51:52 GMT

←Older revision		Revision as of 14:51, 3 March 2021
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	<StructureSection load='5mki' size='340' side='right'caption='[[5mki]], [[Resolution\|resolution]] 2.05Å' scene=''>		<StructureSection load='5mki' size='340' side='right'caption='[[5mki]], [[Resolution\|resolution]] 2.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5mki]] is a 14 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MKI OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5MKI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5mki]] is a 14 chain structure with sequence from [https://en.wikipedia.org/wiki/Metvs Metvs]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MKI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5MKI FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=5mki FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mki OCA], [~~http~~://pdbe.org/5mki PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5mki RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5mki PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5mki ProSAT]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Mevan_0470 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=406327 METVS])</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=5mki FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mki OCA], [https://pdbe.org/5mki PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5mki RCSB], [https://www.ebi.ac.uk/pdbsum/5mki PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5mki ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Sm and Sm-like (Lsm) proteins are considered as an evolutionary conserved family involved in RNA metabolism in organisms from bacteria and archaea to human. Currently, the function of Sm-like archaeal proteins (SmAP) is not well understood. Here, we report the crystal structures of SmAP proteins from Sulfolobus acidocaldarius and Methanococcus vannielii and a comparative analysis of their RNA-binding sites. Our data show that these SmAPs have only a uridine-specific RNA-binding site, unlike their bacterial homolog Hfq, which has three different RNA-binding sites. Moreover, variations in the amino acid composition of the U-binding sites of the two SmAPs lead to a difference in protein affinity for oligo(U) RNA. Surface plasmon resonance data and nucleotide-binding analysis confirm the high affinity of SmAPs for uridine nucleotides and oligo(U) RNA and the reduced affinity for adenines, guanines, cytidines and corresponding oligo-RNAs. In addition, we demonstrate that MvaSmAP1 and SacSmAP2 are capable of melting an RNA hairpin and, apparently, promote its interaction with complementary RNA.
		+
		+	Crystal structures and RNA-binding properties of Lsm proteins from archaea Sulfolobus acidocaldarius and Methanococcus vannielii: Similarity and difference of the U-binding mode.,Lekontseva N, Mikhailina A, Fando M, Kravchenko O, Balobanov V, Tishchenko S, Nikulin A Biochimie. 2020 Aug;175:1-12. doi: 10.1016/j.biochi.2020.05.001. Epub 2020 May, 15. PMID:32422160<ref>PMID:32422160</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5mki" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Sm-like protein\|Sm-like protein]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
		+	[[Category: Metvs]]
	[[Category: Lekontseva, N V]]		[[Category: Lekontseva, N V]]
	[[Category: Nikulin, A D]]		[[Category: Nikulin, A D]]

OCA at 07:21, 19 August 2020

OCA — Wed, 19 Aug 2020 07:21:47 GMT

←Older revision		Revision as of 07:21, 19 August 2020
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	==Crystal structure of SmAP (LSm) protein from Methanococcus vannielii==		==Crystal structure of SmAP (LSm) protein from Methanococcus vannielii==
-	<StructureSection load='5mki' size='340' side='right' caption='[[5mki]], [[Resolution\|resolution]] 2.05Å' scene=''>	+	<StructureSection load='5mki' size='340' side='right'caption='[[5mki]], [[Resolution\|resolution]] 2.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5mki]] is a 14 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MKI OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5MKI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5mki]] is a 14 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MKI OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5MKI FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</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=5mki FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mki OCA], [http://pdbe.org/5mki PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mki RCSB], [http://www.ebi.ac.uk/pdbsum/5mki PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mki ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5mki FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mki OCA], [http://pdbe.org/5mki PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mki RCSB], [http://www.ebi.ac.uk/pdbsum/5mki PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mki ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Lekontseva, N V]]		[[Category: Lekontseva, N V]]
	[[Category: Nikulin, A D]]		[[Category: Nikulin, A D]]

OCA at 06:09, 20 December 2017

OCA — Wed, 20 Dec 2017 06:09:05 GMT

←Older revision		Revision as of 06:09, 20 December 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5mki is ~~ON HOLD until Paper Publication~~	+	==Crystal structure of SmAP (LSm) protein from Methanococcus vannielii==
-		+	<StructureSection load='5mki' size='340' side='right' caption='[[5mki]], [[Resolution\|resolution]] 2.05Å' scene=''>
-	~~Authors~~: ~~Nikulin~~, A.D., ~~Lekontseva~~, N.V., ~~Tishchenko~~, S.V.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5mki]] is a 14 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MKI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5MKI FirstGlance]. <br>
-	~~Description: Crystal structure of SmAP (LSm) protein from Methanococcus vannielii~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</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=5mki FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mki OCA], [http://pdbe.org/5mki PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mki RCSB], [http://www.ebi.ac.uk/pdbsum/5mki PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mki ProSAT]</span></td></tr>
-	[[Category: ~~Lekontseva~~, ~~N.V~~]]	+	</table>
-	[[Category: Tishchenko, S.V]]	+	__TOC__
-	[[Category: ~~Nikulin, A.D~~]]	+	</StructureSection>
		+	[[Category: Lekontseva, N V]]
		+	[[Category: Nikulin, A D]]
		+	[[Category: Tishchenko, S V]]
		+	[[Category: Lsm]]
		+	[[Category: Rna binding protein]]
		+	[[Category: Smap]]

OCA at 11:23, 9 March 2017

OCA — Thu, 09 Mar 2017 11:23:50 GMT

←Older revision		Revision as of 11:23, 9 March 2017
Line 8:		Line 8:
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Lekontseva, N.V]]		[[Category: Lekontseva, N.V]]
-	[[Category: Nikulin, A.D]]
	[[Category: Tishchenko, S.V]]		[[Category: Tishchenko, S.V]]
		+	[[Category: Nikulin, A.D]]

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

OCA — Thu, 15 Dec 2016 16:24:41 GMT

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

←Older revision

Revision as of 16:24, 15 December 2016

OCA: New page: '''Unreleased structure''' The entry 5mki is ON HOLD until Paper Publication Authors: Nikulin, A.D., Lekontseva, N.V., Tishchenko, S.V. Description: Crystal structure of SmAP (LSm) pro...

OCA — Thu, 15 Dec 2016 16:24:40 GMT

New page: '''Unreleased structure''' The entry 5mki is ON HOLD until Paper Publication Authors: Nikulin, A.D., Lekontseva, N.V., Tishchenko, S.V. Description: Crystal structure of SmAP (LSm) pro...

New page

'''Unreleased structure'''

The entry 5mki is ON HOLD until Paper Publication

Authors: Nikulin, A.D., Lekontseva, N.V., Tishchenko, S.V.

Description: Crystal structure of SmAP (LSm) protein from Methanococcus vannielii
[[Category: Unreleased Structures]]
[[Category: Lekontseva, N.V]]
[[Category: Nikulin, A.D]]
[[Category: Tishchenko, S.V]]