2mev - Revision history

OCA at 09:36, 19 April 2023

2023-04-19T09:36:12Z

←Older revision		Revision as of 09:36, 19 April 2023
Line 3:		Line 3:
	<StructureSection load='2mev' size='340' side='right'caption='[[2mev]], [[Resolution\|resolution]] 3.00Å' scene=''>		<StructureSection load='2mev' size='340' side='right'caption='[[2mev]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2mev]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Enmgo Enmgo~~]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1mev 1mev]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2MEV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2MEV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2mev]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Mengo_virus Mengo virus]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1mev 1mev]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2MEV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2MEV FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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=2mev FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2mev OCA], [https://pdbe.org/2mev PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2mev RCSB], [https://www.ebi.ac.uk/pdbsum/2mev PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2mev 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=2mev FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2mev OCA], [https://pdbe.org/2mev PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2mev RCSB], [https://www.ebi.ac.uk/pdbsum/2mev PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2mev ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/POLG_ENMGO POLG_ENMGO]] Capsid proteins VP1, VP2, VP3 and VP4 form a closed capsid enclosing the viral positive strand RNA genome. VP4 lies on the inner surface of the protein shell formed by VP1, VP2 and VP3. All the three latter proteins contain a beta-sheet structure called beta-barrel jelly roll. Together they form an icosahedral capsid (T=3) composed of 60 copies of each VP1, VP2, and VP3, with a diameter of approximately 300 Angstroms. VP1 is situated at the 12 fivefold axes, whereas VP2 and VP3 are located at the quasi-sixfold axes (By similarity). Protein VP0: VP0 precursor is a component of immature procapsids (By similarity). Protein 2B: Affects membrane integrity and cause an increase in membrane permeability (By similarity). Protein 2C: Associates with and induces structural rearrangements of intracellular membranes. It displays RNA-binding, nucleotide binding and NTPase activities (By similarity). Protein 3A, via its hydrophobic domain, serves as membrane anchor (By similarity). Protease 3C: cysteine protease that generates mature viral proteins from the precursor polyprotein. In addition to its proteolytic activity, it binds to viral RNA, and thus influences viral genome replication. RNA and substrate bind cooperatively to the protease (By similarity). RNA-directed RNA polymerase 3D-POL replicates genomic and antigenomic RNA by recognizing replications specific signals (By similarity). Protein 2A: is involved in host translation shutoff. Nuclear localization is required for this function (By similarity).	+	[https://www.uniprot.org/uniprot/POLG_ENMGO POLG_ENMGO] Capsid proteins VP1, VP2, VP3 and VP4 form a closed capsid enclosing the viral positive strand RNA genome. VP4 lies on the inner surface of the protein shell formed by VP1, VP2 and VP3. All the three latter proteins contain a beta-sheet structure called beta-barrel jelly roll. Together they form an icosahedral capsid (T=3) composed of 60 copies of each VP1, VP2, and VP3, with a diameter of approximately 300 Angstroms. VP1 is situated at the 12 fivefold axes, whereas VP2 and VP3 are located at the quasi-sixfold axes (By similarity). Protein VP0: VP0 precursor is a component of immature procapsids (By similarity). Protein 2B: Affects membrane integrity and cause an increase in membrane permeability (By similarity). Protein 2C: Associates with and induces structural rearrangements of intracellular membranes. It displays RNA-binding, nucleotide binding and NTPase activities (By similarity). Protein 3A, via its hydrophobic domain, serves as membrane anchor (By similarity). Protease 3C: cysteine protease that generates mature viral proteins from the precursor polyprotein. In addition to its proteolytic activity, it binds to viral RNA, and thus influences viral genome replication. RNA and substrate bind cooperatively to the protease (By similarity). RNA-directed RNA polymerase 3D-POL replicates genomic and antigenomic RNA by recognizing replications specific signals (By similarity). Protein 2A: is involved in host translation shutoff. Nuclear localization is required for this function (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Enmgo]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Rossmann, M G]]~~	+	[[Category: Mengo virus]]
-	~~[[Category: Cardio picornavirus coat protein]]~~	+	[[Category: Rossmann MG]]
-	~~[[Category: Icosahedral~~ virus]]	+
-	[[Category: ~~Virus~~]]	+

OCA at 20:49, 20 October 2021

2021-10-20T20:49:08Z

←Older revision		Revision as of 20:49, 20 October 2021
Line 3:		Line 3:
	<StructureSection load='2mev' size='340' side='right'caption='[[2mev]], [[Resolution\|resolution]] 3.00Å' scene=''>		<StructureSection load='2mev' size='340' side='right'caption='[[2mev]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2mev]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Enmgo Enmgo]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1mev 1mev]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2MEV OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2MEV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2mev]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Enmgo Enmgo]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1mev 1mev]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2MEV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2MEV FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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=2mev FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2mev OCA], [~~http~~://pdbe.org/2mev PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2mev RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2mev PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2mev 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=2mev FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2mev OCA], [https://pdbe.org/2mev PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2mev RCSB], [https://www.ebi.ac.uk/pdbsum/2mev PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2mev ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/POLG_ENMGO POLG_ENMGO]] Capsid proteins VP1, VP2, VP3 and VP4 form a closed capsid enclosing the viral positive strand RNA genome. VP4 lies on the inner surface of the protein shell formed by VP1, VP2 and VP3. All the three latter proteins contain a beta-sheet structure called beta-barrel jelly roll. Together they form an icosahedral capsid (T=3) composed of 60 copies of each VP1, VP2, and VP3, with a diameter of approximately 300 Angstroms. VP1 is situated at the 12 fivefold axes, whereas VP2 and VP3 are located at the quasi-sixfold axes (By similarity). Protein VP0: VP0 precursor is a component of immature procapsids (By similarity). Protein 2B: Affects membrane integrity and cause an increase in membrane permeability (By similarity). Protein 2C: Associates with and induces structural rearrangements of intracellular membranes. It displays RNA-binding, nucleotide binding and NTPase activities (By similarity). Protein 3A, via its hydrophobic domain, serves as membrane anchor (By similarity). Protease 3C: cysteine protease that generates mature viral proteins from the precursor polyprotein. In addition to its proteolytic activity, it binds to viral RNA, and thus influences viral genome replication. RNA and substrate bind cooperatively to the protease (By similarity). RNA-directed RNA polymerase 3D-POL replicates genomic and antigenomic RNA by recognizing replications specific signals (By similarity). Protein 2A: is involved in host translation shutoff. Nuclear localization is required for this function (By similarity).	+	[[https://www.uniprot.org/uniprot/POLG_ENMGO POLG_ENMGO]] Capsid proteins VP1, VP2, VP3 and VP4 form a closed capsid enclosing the viral positive strand RNA genome. VP4 lies on the inner surface of the protein shell formed by VP1, VP2 and VP3. All the three latter proteins contain a beta-sheet structure called beta-barrel jelly roll. Together they form an icosahedral capsid (T=3) composed of 60 copies of each VP1, VP2, and VP3, with a diameter of approximately 300 Angstroms. VP1 is situated at the 12 fivefold axes, whereas VP2 and VP3 are located at the quasi-sixfold axes (By similarity). Protein VP0: VP0 precursor is a component of immature procapsids (By similarity). Protein 2B: Affects membrane integrity and cause an increase in membrane permeability (By similarity). Protein 2C: Associates with and induces structural rearrangements of intracellular membranes. It displays RNA-binding, nucleotide binding and NTPase activities (By similarity). Protein 3A, via its hydrophobic domain, serves as membrane anchor (By similarity). Protease 3C: cysteine protease that generates mature viral proteins from the precursor polyprotein. In addition to its proteolytic activity, it binds to viral RNA, and thus influences viral genome replication. RNA and substrate bind cooperatively to the protease (By similarity). RNA-directed RNA polymerase 3D-POL replicates genomic and antigenomic RNA by recognizing replications specific signals (By similarity). Protein 2A: is involved in host translation shutoff. Nuclear localization is required for this function (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 30:		Line 30:

	==See Also==		==See Also==
-	*[[Virus coat ~~protein~~\|Virus coat ~~protein~~]]	+	*[[Virus coat proteins 3D structures\|Virus coat proteins 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 14:01, 18 December 2019

2019-12-18T14:01:43Z

←Older revision		Revision as of 14:01, 18 December 2019
Line 1:		Line 1:

	==STRUCTURAL REFINEMENT AND ANALYSIS OF MENGO VIRUS==		==STRUCTURAL REFINEMENT AND ANALYSIS OF MENGO VIRUS==
-	<StructureSection load='2mev' size='340' side='right' caption='[[2mev]], [[Resolution\|resolution]] 3.00Å' scene=''>	+	<StructureSection load='2mev' size='340' side='right'caption='[[2mev]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2mev]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Enmgo Enmgo]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1mev 1mev]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2MEV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2MEV FirstGlance]. <br>		<table><tr><td colspan='2'>[[2mev]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Enmgo Enmgo]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1mev 1mev]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2MEV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2MEV FirstGlance]. <br>
Line 13:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/me/2mev_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/me/2mev_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>
Line 28:		Line 28:
	</div>		</div>
	<div class="pdbe-citations 2mev" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2mev" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Virus coat protein\|Virus coat protein]]
	== References ==		== References ==
	<references/>		<references/>
Line 33:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Enmgo]]		[[Category: Enmgo]]
		+	[[Category: Large Structures]]
	[[Category: Rossmann, M G]]		[[Category: Rossmann, M G]]
	[[Category: Cardio picornavirus coat protein]]		[[Category: Cardio picornavirus coat protein]]
	[[Category: Icosahedral virus]]		[[Category: Icosahedral virus]]
	[[Category: Virus]]		[[Category: Virus]]

OCA at 07:09, 29 November 2017

2017-11-29T07:09:04Z

←Older revision		Revision as of 07:09, 29 November 2017
Line 1:		Line 1:
		+
	==STRUCTURAL REFINEMENT AND ANALYSIS OF MENGO VIRUS==		==STRUCTURAL REFINEMENT AND ANALYSIS OF MENGO VIRUS==
	<StructureSection load='2mev' size='340' side='right' caption='[[2mev]], [[Resolution\|resolution]] 3.00Å' scene=''>		<StructureSection load='2mev' size='340' side='right' caption='[[2mev]], [[Resolution\|resolution]] 3.00Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[2mev]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Enmgo Enmgo]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1mev 1mev]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2MEV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2MEV FirstGlance]. <br>		<table><tr><td colspan='2'>[[2mev]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Enmgo Enmgo]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1mev 1mev]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2MEV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2MEV FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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=2mev FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2mev OCA], [http://pdbe.org/2mev PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2mev RCSB], [http://www.ebi.ac.uk/pdbsum/2mev 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=2mev FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2mev OCA], [http://pdbe.org/2mev PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2mev RCSB], [http://www.ebi.ac.uk/pdbsum/2mev PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2mev ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 27:		Line 28:
	</div>		</div>
	<div class="pdbe-citations 2mev" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2mev" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Virus coat protein\|Virus coat protein]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 15:05, 9 February 2016

2016-02-09T15:05:47Z

←Older revision		Revision as of 15:05, 9 February 2016
Line 16:		Line 16:
	<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=2mev ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 23:25, 10 September 2015

2015-09-10T23:25:00Z

←Older revision		Revision as of 23:25, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='2mev' size='340' side='right' caption='[[2mev]], [[Resolution\|resolution]] 3.00Å' scene=''>		<StructureSection load='2mev' size='340' side='right' caption='[[2mev]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2mev]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Mengo_virus Mengo virus~~]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1mev 1mev]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2MEV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2MEV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2mev]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Enmgo Enmgo]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1mev 1mev]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2MEV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2MEV FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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=2mev FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2mev OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2mev RCSB], [http://www.ebi.ac.uk/pdbsum/2mev 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=2mev FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2mev OCA], [http://pdbe.org/2mev PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2mev RCSB], [http://www.ebi.ac.uk/pdbsum/2mev PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 26:		Line 26:
	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 2mev" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 33:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Mengo virus~~]]	+	[[Category: Enmgo]]
	[[Category: Rossmann, M G]]		[[Category: Rossmann, M G]]
	[[Category: Cardio picornavirus coat protein]]		[[Category: Cardio picornavirus coat protein]]
	[[Category: Icosahedral virus]]		[[Category: Icosahedral virus]]
	[[Category: Virus]]		[[Category: Virus]]

OCA at 07:35, 25 December 2014

2014-12-25T07:35:17Z

←Older revision		Revision as of 07:35, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2mev]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Mengo_virus Mengo virus]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1mev 1mev]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2MEV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2MEV FirstGlance]. <br>		<table><tr><td colspan='2'>[[2mev]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Mengo_virus Mengo virus]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1mev 1mev]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2MEV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2MEV FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></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=2mev FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2mev OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2mev RCSB], [http://www.ebi.ac.uk/pdbsum/2mev 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=2mev FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2mev OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2mev RCSB], [http://www.ebi.ac.uk/pdbsum/2mev PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/POLG_ENMGO POLG_ENMGO]] Capsid proteins VP1, VP2, VP3 and VP4 form a closed capsid enclosing the viral positive strand RNA genome. VP4 lies on the inner surface of the protein shell formed by VP1, VP2 and VP3. All the three latter proteins contain a beta-sheet structure called beta-barrel jelly roll. Together they form an icosahedral capsid (T=3) composed of 60 copies of each VP1, VP2, and VP3, with a diameter of approximately 300 Angstroms. VP1 is situated at the 12 fivefold axes, whereas VP2 and VP3 are located at the quasi-sixfold axes (By similarity). Protein VP0: VP0 precursor is a component of immature procapsids (By similarity). Protein 2B: Affects membrane integrity and cause an increase in membrane permeability (By similarity). Protein 2C: Associates with and induces structural rearrangements of intracellular membranes. It displays RNA-binding, nucleotide binding and NTPase activities (By similarity). Protein 3A, via its hydrophobic domain, serves as membrane anchor (By similarity). Protease 3C: cysteine protease that generates mature viral proteins from the precursor polyprotein. In addition to its proteolytic activity, it binds to viral RNA, and thus influences viral genome replication. RNA and substrate bind cooperatively to the protease (By similarity). RNA-directed RNA polymerase 3D-POL replicates genomic and antigenomic RNA by recognizing replications specific signals (By similarity). Protein 2A: is involved in host translation shutoff. Nuclear localization is required for this function (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 34:
	</StructureSection>		</StructureSection>
	[[Category: Mengo virus]]		[[Category: Mengo virus]]
-	[[Category: Rossmann, M G.]]	+	[[Category: Rossmann, M G]]
	[[Category: Cardio picornavirus coat protein]]		[[Category: Cardio picornavirus coat protein]]
	[[Category: Icosahedral virus]]		[[Category: Icosahedral virus]]
	[[Category: Virus]]		[[Category: Virus]]

OCA at 02:59, 29 September 2014

2014-09-29T02:59:23Z

←Older revision		Revision as of 02:59, 29 September 2014
Line 1:		Line 1:
-	[[~~Image~~:2mev.~~png\|left~~\|200px]]	+	==STRUCTURAL REFINEMENT AND ANALYSIS OF MENGO VIRUS==
		+	<StructureSection load='2mev' size='340' side='right' caption='[[2mev]], [[Resolution\|resolution]] 3.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2mev]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Mengo_virus Mengo virus]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1mev 1mev]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2MEV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2MEV FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene><br>
		+	<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=2mev FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2mev OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2mev RCSB], [http://www.ebi.ac.uk/pdbsum/2mev 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/me/2mev_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 ==
		+	The structure of Mengo encephalomyelitis virus was refined at 3 A resolution with a final R-factor of 0.221 and a root-mean-square deviation from idealized bond lengths of 0.019 A for 10 A to 3 A data with F greater than or equal to 3 sigma(F). The Hendrickson-Konnert refinement was restrained by the phases derived from the molecular replacement averaging procedure and constrained by the icosahedral symmetry of the virus. The virus consists of 60 protomers each having three major subunits, VP1, VP2 and VP3, along with one smaller internal protein, VP4. The three major subunits form similar eight-stranded beta-barrel structures. Alterations in the original sequence were found at position 45 in VP1 (Arg to Ala) and at position 58 in VP3 (Met to Val). The residues in loops I and II of VP1 (82 to 102), the "FMDV loop" in VP1 (205 to 213), the flexible loop of VP3 in the putative receptor attachment site (175 to 185) as well as the terminal regions 260 to 268 in VP1, 253 to 256 in VP2 and 13 to 15 in VP4 were built or modified in regions of weak density. The variation in temperature factors at the end of the refinement is over a wide range (from 2 to 80 A2), with the disordered outer and inner regions showing high mobility. Four cis proline residues, 105 in VP1, 85 and 152 in VP2 and 59 in VP3, have been identified. The disulfide bridge Cys86 to Cys88 in VP3 has been characterized. One phosphate ion and 233 water positions were included in the refinement. It is suggested that this phosphate is associated with the receptor attachment site. There are two major hydrogen-bonding networks involving solvent atoms; one involving only the subunits of a protomer, and the other connecting the protomers in a pentamer. The distribution of atom types around the icosahedral symmetry axes shows that the 5-fold channel is more hydrophobic than that along the 3-fold axis and that there are more charged residues around the 2-fold axis. The analysis of contacts between the different subunits supports the assignment of the protomeric unit. The five protomers that form the pentameric unit are held together by interactions involving the smaller VP4 protein and the amino termini of VP1 and VP3. The pentamers are associated by means of the amino-terminal region of the VP2 subunits, the beta F strand of the VP3 subunits, the C terminus of the VP4 subunits and the electrostatic helical (alpha A) interactions of VP2 subunits across the icosahedral 2-fold axes. The superposition of the corresponding subunits of Mengo virus, human rhinovirus 14 and southern bean mosaic virus has provided an improved sequence alignment. The largest structural similarity is between the VP3 subunits of Mengo virus and rhinovirus, while the least similarity is between the VP1 subunits. The various specialized insertions in the different subunits can be associated with specific functional requirements.

-	~~{{STRUCTURE_2mev\| PDB=2mev \| SCENE= }}~~	+	Structural refinement and analysis of Mengo virus.,Krishnaswamy S, Rossmann MG J Mol Biol. 1990 Feb 20;211(4):803-44. PMID:2156078<ref>PMID:2156078</ref>

-	~~===STRUCTURAL REFINEMENT AND ANALYSIS OF MENGO VIRUS===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_2156078}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2mev]] is~~ a ~~4 chain structure with sequence from [http://en.wikipedia.org/wiki/Mengo_virus Mengo virus]. This structure supersedes~~ the ~~now removed PDB entry [http://oca~~.~~weizmann~~.ac.il/~~oca-bin/send-pdb?obs=1&id=1mev 1mev]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2MEV OCA].~~	+

	==See Also==		==See Also==
	*[[Virus coat protein\|Virus coat protein]]		*[[Virus coat protein\|Virus coat protein]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:002156078<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Mengo virus]]		[[Category: Mengo virus]]
	[[Category: Rossmann, M G.]]		[[Category: Rossmann, M G.]]

OCA: Protected "2mev" [edit=sysop:move=sysop]

2012-10-20T14:15:10Z

Protected "2mev" [edit=sysop:move=sysop]

←Older revision

Revision as of 14:15, 20 October 2012

OCA at 14:15, 20 October 2012

2012-10-20T14:15:07Z

←Older revision		Revision as of 14:15, 20 October 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2mev.png\|left\|200px]]		[[Image:2mev.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2mev", 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_2mev\| PDB=2mev \| SCENE= }}		{{STRUCTURE_2mev\| PDB=2mev \| SCENE= }}

	===STRUCTURAL REFINEMENT AND ANALYSIS OF MENGO VIRUS===		===STRUCTURAL REFINEMENT AND ANALYSIS OF MENGO VIRUS===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_2156078}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 2156078 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_2156078}}		{{ABSTRACT_PUBMED_2156078}}

	==About this Structure==		==About this Structure==
-	~~2MEV~~ is a 4 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Mengo_virus Mengo virus]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1mev 1mev]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2MEV OCA].	+	[[2mev]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Mengo_virus Mengo virus]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1mev 1mev]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2MEV OCA].
		+
		+	==See Also==
		+	*[[Virus coat protein\|Virus coat protein]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~2156078~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:002156078</ref><references group="xtra"/>
	[[Category: Mengo virus]]		[[Category: Mengo virus]]
	[[Category: Rossmann, M G.]]		[[Category: Rossmann, M G.]]
	[[Category: Cardio picornavirus coat protein]]		[[Category: Cardio picornavirus coat protein]]
	[[Category: Icosahedral virus]]		[[Category: Icosahedral virus]]
-		+	[[Category: Virus]]
-	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Tue Feb 17 10:41:57 2009''~~	+