5tip - Revision history

OCA at 15:41, 6 March 2024

2024-03-06T15:41:09Z

← Older revision		Revision as of 15:41, 6 March 2024
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	<StructureSection load='5tip' size='340' side='right'caption='[[5tip]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='5tip' size='340' side='right'caption='[[5tip]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5tip]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Paramecium_bursaria_chlorella_virus_1~~ Paramecium bursaria ~~chlorella~~ virus 1]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1m3y 1m3y]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TIP OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5TIP FirstGlance]. <br>		<table><tr><td colspan='2'>[[5tip]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Paramecium_bursaria_Chlorella_virus_1 Paramecium bursaria Chlorella virus 1]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1m3y 1m3y]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TIP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5TIP FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=7CV:6-deoxy-2,3-di-O-methyl-alpha-L-mannopyranose'>7CV</scene>, <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=GLA:ALPHA+D-GALACTOSE'>GLA</scene>, <scene name='pdbligand=HG:MERCURY+(II)+ION'>HG</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=RM4:6-DEOXY-BETA-L-MANNOPYRANOSE'>RM4</scene>, <scene name='pdbligand=XXR:6-DEOXY-ALPHA-D-MANNOPYRANOSE'>XXR</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</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]] 2Å</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=5tip FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tip OCA], [~~http~~://pdbe.org/5tip PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5tip RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5tip PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5tip ProSAT]</span></td></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=7CV:6-deoxy-2,3-di-O-methyl-alpha-L-mannopyranose'>7CV</scene>, <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=GLA:ALPHA+D-GALACTOSE'>GLA</scene>, <scene name='pdbligand=HG:MERCURY+(II)+ION'>HG</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=RM4:6-DEOXY-BETA-L-MANNOPYRANOSE'>RM4</scene>, <scene name='pdbligand=XXR:6-DEOXY-ALPHA-D-MANNOPYRANOSE'>XXR</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</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=5tip FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tip OCA], [https://pdbe.org/5tip PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5tip RCSB], [https://www.ebi.ac.uk/pdbsum/5tip PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5tip ProSAT]</span></td></tr>
	</table>		</table>
	~~<div style="background-color:#fffaf0;">~~		== Function ==
	== ~~Publication Abstract from PubMed~~ ==		[https://www.uniprot.org/uniprot/MCP_PBCV1 MCP_PBCV1]
	The glycans of the major capsid protein (Vp54) of Paramecium bursaria chlorella virus (PBCV-1) were recently described and found to be unusual. This prompted a reexamination of the previously reported Vp54 X-ray structure. A detailed description of the complete glycoprotein was achieved by combining crystallographic data with molecular modeling. The crystallographic data identified most of the monosaccharides located close to the protein backbone, but failed to detect those further from the glycosylation sites. Molecular modeling complemented this model by adding the missing monosaccharides and examined the conformational preference of the whole molecule, alone or within the crystallographic environment. Thus, combining X-ray crystallography with carbohydrate molecular modeling resulted in determining the complete glycosylated structure of a glycoprotein. In this case, it is the chlorovirus PBCV-1 major capsid protein.

	Structure of the chlorovirus PBCV-1 major capsid glycoprotein determined by combining crystallographic and carbohydrate molecular modeling approaches.,De Castro C, Klose T, Speciale I, Lanzetta R, Molinaro A, Van Etten JL, Rossmann MG Proc Natl Acad Sci U S A. 2017 Dec 18. pii: ~~1613432115. doi:, 10.1073~~/~~pnas.1613432115. PMID:29255015<ref>PMID:29255015<~~/~~ref>~~

	~~From MEDLINE®/PubMed®, a database of the U.S~~. ~~National Library of Medicine~~.~~<br>~~
	</~~div>~~
	~~<div class="pdbe-citations 5tip" style="background-color:#fffaf0;"><~~/~~div>~~

	==See Also==		==See Also==
	*[[Virus coat ~~protein~~\|Virus coat ~~protein~~]]		*[[Virus coat proteins 3D structures\|Virus coat proteins 3D structures]]
	~~== References ==~~
	~~<references/>~~
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Paramecium bursaria ~~chlorella~~ virus 1]]		[[Category: Paramecium bursaria Chlorella virus 1]]
	[[Category: Castro, C ~~De]]~~		[[Category: De Castro C]]
	~~[[Category: Etten, J L.Van~~]]		[[Category: Klose T]]
	[[Category: Klose, T]]		[[Category: Molinaro A]]
	[[Category: Molinaro, A]]		[[Category: Rossmann MG]]
	[[Category: Rossmann~~, M G~~]]		[[Category: Speciale I]]
	[[Category: Speciale, I]]		[[Category: Van Etten JL]]
	[[Category: ~~Viral protein~~]]

OCA at 07:53, 27 November 2019

2019-11-27T07:53:01Z

← Older revision		Revision as of 07:53, 27 November 2019
Line 1:		Line 1:

	==The Structure of the Major Capsid protein of PBCV-1==		==The Structure of the Major Capsid protein of PBCV-1==
	<StructureSection load='5tip' size='340' side='right' caption='[[5tip]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='5tip' size='340' side='right'caption='[[5tip]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5tip]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Paramecium_bursaria_chlorella_virus_1 Paramecium bursaria chlorella virus 1]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1m3y 1m3y]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TIP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5TIP FirstGlance]. <br>		<table><tr><td colspan='2'>[[5tip]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Paramecium_bursaria_chlorella_virus_1 Paramecium bursaria chlorella virus 1]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1m3y 1m3y]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TIP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5TIP FirstGlance]. <br>
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	</div>		</div>
	<div class="pdbe-citations 5tip" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5tip" style="background-color:#fffaf0;"></div>

			==See Also==
			*[[Virus coat protein\|Virus coat protein]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Large Structures]]
	[[Category: Paramecium bursaria chlorella virus 1]]		[[Category: Paramecium bursaria chlorella virus 1]]
	[[Category: Castro, C De]]		[[Category: Castro, C De]]

OCA at 05:58, 3 January 2018

2018-01-03T05:58:23Z

@@ Line 7: / Line 7: @@
 <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=5tip FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tip OCA], [http://pdbe.org/5tip PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5tip RCSB], [http://www.ebi.ac.uk/pdbsum/5tip PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5tip ProSAT]</span></td></tr>
 </table>
 __TOC__
 </StructureSection>

OCA at 06:49, 18 October 2017

2017-10-18T06:49:39Z

← Older revision		Revision as of 06:49, 18 October 2017
Line 1:		Line 1:
	~~'''Unreleased structure'''~~

	The entry ~~5tip~~ is ~~ON HOLD until Paper Publication~~		==The Structure of the Major Capsid protein of PBCV-1==
			<StructureSection load='5tip' size='340' side='right' caption='[[5tip]], [[Resolution\|resolution]] 2.00Å' scene=''>
	~~Authors~~: ~~Klose~~, T., ~~De Castro~~, C., ~~Speciale~~, I., ~~Molinaro~~, A., ~~Van Etten~~, J.L., ~~Rossmann, M~~.G.		== Structural highlights ==
			<table><tr><td colspan='2'>[[5tip]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Paramecium_bursaria_chlorella_virus_1 Paramecium bursaria chlorella virus 1]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1m3y 1m3y]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TIP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5TIP FirstGlance]. <br>
	~~Description~~: ~~The Structure of the Major Capsid protein of PBCV-~~1		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=7CV:6-deoxy-2,3-di-O-methyl-alpha-L-mannopyranose'>7CV</scene>, <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=GLA:ALPHA+D-GALACTOSE'>GLA</scene>, <scene name='pdbligand=HG:MERCURY+(II)+ION'>HG</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=RM4:6-DEOXY-BETA-L-MANNOPYRANOSE'>RM4</scene>, <scene name='pdbligand=XXR:6-DEOXY-ALPHA-D-MANNOPYRANOSE'>XXR</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</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=5tip FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tip OCA], [http://pdbe.org/5tip PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5tip RCSB], [http://www.ebi.ac.uk/pdbsum/5tip PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5tip ProSAT]</span></td></tr>
			</table>
			__TOC__
			</StructureSection>
			[[Category: Paramecium bursaria chlorella virus 1]]
			[[Category: Castro, C De]]
			[[Category: Etten, J L.Van]]
			[[Category: Klose, T]]
	[[Category: Molinaro, A]]		[[Category: Molinaro, A]]
	[[Category: ~~Van Etten~~, ~~J.L~~]]		[[Category: Rossmann, M G]]
	[[Category: Speciale, I]]		[[Category: Speciale, I]]
	[[Category: ~~De Castro, C]]~~		[[Category: Viral protein]]
	~~[[Category: Rossmann, M.G]]~~
	~~[[Category: Klose, T~~]]

OCA at 13:23, 27 September 2017

2017-09-27T13:23:07Z

← Older revision		Revision as of 13:23, 27 September 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 5tip is ON HOLD		The entry 5tip is ON HOLD until Paper Publication

	Authors: Klose, T., De Castro, C., Speciale, I., Molinaro, A., Van Etten, J.L., Rossmann, M.G.		Authors: Klose, T., De Castro, C., Speciale, I., Molinaro, A., Van Etten, J.L., Rossmann, M.G.

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

2016-10-19T15:52:31Z

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

← Older revision	Revision as of 15:52, 19 October 2016
(No difference)

OCA: New page: '''Unreleased structure''' The entry 5tip is ON HOLD Authors: Klose, T., De Castro, C., Speciale, I., Molinaro, A., Van Etten, J.L., Rossmann, M.G. Description: The Structure of the Ma...

2016-10-19T15:52:29Z

New page: '''Unreleased structure''' The entry 5tip is ON HOLD Authors: Klose, T., De Castro, C., Speciale, I., Molinaro, A., Van Etten, J.L., Rossmann, M.G. Description: The Structure of the Ma...

New page

'''Unreleased structure'''

The entry 5tip is ON HOLD

Authors: Klose, T., De Castro, C., Speciale, I., Molinaro, A., Van Etten, J.L., Rossmann, M.G.

Description: The Structure of the Major Capsid protein of PBCV-1
[[Category: Unreleased Structures]]
[[Category: Molinaro, A]]
[[Category: Van Etten, J.L]]
[[Category: Speciale, I]]
[[Category: De Castro, C]]
[[Category: Rossmann, M.G]]
[[Category: Klose, T]]