4h5q - Revision history

OCA at 15:00, 20 September 2023

2023-09-20T15:00:42Z

←Older revision		Revision as of 15:00, 20 September 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4h5q]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Rift_Valley_fever_virus Rift Valley fever virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4H5Q OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4H5Q FirstGlance]. <br>		<table><tr><td colspan='2'>[[4h5q]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Rift_Valley_fever_virus Rift Valley fever virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4H5Q OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4H5Q FirstGlance]. <br>
-	</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=4h5q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4h5q OCA], [https://pdbe.org/4h5q PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4h5q RCSB], [https://www.ebi.ac.uk/pdbsum/4h5q PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4h5q ProSAT]</span></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]] 2.7Å</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=4h5q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4h5q OCA], [https://pdbe.org/4h5q PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4h5q RCSB], [https://www.ebi.ac.uk/pdbsum/4h5q PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4h5q ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 08:01, 3 November 2022

2022-11-03T08:01:34Z

←Older revision		Revision as of 08:01, 3 November 2022
Line 1:		Line 1:

	==Crystal Structure of Rift Valley Fever Virus Nucleocapsid Protein Hexamer Bound to Single-stranded DNA==		==Crystal Structure of Rift Valley Fever Virus Nucleocapsid Protein Hexamer Bound to Single-stranded DNA==
-	<StructureSection load='4h5q' size='340' side='right' caption='[[4h5q]], [[Resolution\|resolution]] 2.70Å' scene=''>	+	<StructureSection load='4h5q' size='340' side='right'caption='[[4h5q]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4h5q]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Rvfv Rvfv~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4H5Q OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4H5Q FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4h5q]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Rift_Valley_fever_virus Rift Valley fever virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4H5Q OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4H5Q FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4h5l\|4h5l]], [[4h5m\|4h5m]], [[4h5o\|4h5o]], [[4h5p\|4h5p]], [[4h6f\|4h6f]], [[4h6g\|4h6g]]</td></tr>	+	</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=4h5q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4h5q OCA], [https://pdbe.org/4h5q PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4h5q RCSB], [https://www.ebi.ac.uk/pdbsum/4h5q PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4h5q ProSAT]</span></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">N ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11588 RVFV])</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=4h5q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4h5q OCA], [~~http~~://pdbe.org/4h5q PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4h5q RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4h5q PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4h5q ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/NCAP_RVFV NCAP_RVFV] Encapsidates the genomic RNA, protecting it from nucleases (Probable) (PubMed:20547879). Displays high affinity for single-stranded nucleic acid (PubMed:23129612). The encapsidated genomic RNA is termed the nucleocapsid (NC) or ribonucleoprotein (PubMed:20547879). The ribonucleoprotein has a non-helical structure (PubMed:20547879). Serves as template for viral transcription and replication (By similarity). After replication, the nucleocapsid is recruited to the host Golgi apparatus by glycoprotein Gn for packaging into virus particles (By similarity).[UniProtKB:P21700]<ref>PMID:20547879</ref> <ref>PMID:23129612</ref> <ref>PMID:34960686</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Rvfv~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Raymond, D D~~]]	+	[[Category: Rift Valley fever virus]]
-	[[Category: ~~Smith, J L~~]]	+	[[Category: Raymond DD]]
-	[[Category: ~~N protein]]~~	+	[[Category: Smith JL]]
-	~~[[Category: Nucleocapsid protein]]~~	+
-	~~[[Category: Ribonucleoprotein]]~~	+
-	~~[[Category: Rna binding]]~~	+
-	~~[[Category: Rnp]]~~	+
-	~~[[Category: Viral nucleoprotein]]~~	+
-	~~[[Category: Viral protein-dna complex]]~~	+
-	~~[[Category: Virus~~]]	+

OCA at 19:53, 15 December 2016

2016-12-15T19:53:05Z

←Older revision		Revision as of 19:53, 15 December 2016
Line 1:		Line 1:
		+
	==Crystal Structure of Rift Valley Fever Virus Nucleocapsid Protein Hexamer Bound to Single-stranded DNA==		==Crystal Structure of Rift Valley Fever Virus Nucleocapsid Protein Hexamer Bound to Single-stranded DNA==
	<StructureSection load='4h5q' size='340' side='right' caption='[[4h5q]], [[Resolution\|resolution]] 2.70Å' scene=''>		<StructureSection load='4h5q' size='340' side='right' caption='[[4h5q]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4h5q]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Rift_valley_fever_virus Rift valley fever virus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4H5Q OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4H5Q FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4h5q]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Rvfv Rvfv]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4H5Q OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4H5Q FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4h5l\|4h5l]], [[4h5m\|4h5m]], [[4h5o\|4h5o]], [[4h5p\|4h5p]], [[4h6f\|4h6f]], [[4h6g\|4h6g]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4h5l\|4h5l]], [[4h5m\|4h5m]], [[4h5o\|4h5o]], [[4h5p\|4h5p]], [[4h6f\|4h6f]], [[4h6g\|4h6g]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">N ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11588 ~~Rift Valley fever virus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">N ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11588 RVFV])</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=4h5q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4h5q OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4h5q RCSB], [http://www.ebi.ac.uk/pdbsum/4h5q 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=4h5q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4h5q OCA], [http://pdbe.org/4h5q PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4h5q RCSB], [http://www.ebi.ac.uk/pdbsum/4h5q PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4h5q ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 15:		Line 16:
	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 4h5q" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Rift valley fever virus~~]]	+	[[Category: Rvfv]]
	[[Category: Raymond, D D]]		[[Category: Raymond, D D]]
	[[Category: Smith, J L]]		[[Category: Smith, J L]]

OCA at 09:17, 10 December 2014

2014-12-10T09:17:41Z

←Older revision		Revision as of 09:17, 10 December 2014
Line 1:		Line 1:
-	[[~~Image:~~4h5q.~~png~~\|~~left~~\|~~200px~~]]	+	==Crystal Structure of Rift Valley Fever Virus Nucleocapsid Protein Hexamer Bound to Single-stranded DNA==
		+	<StructureSection load='4h5q' size='340' side='right' caption='[[4h5q]], [[Resolution\|resolution]] 2.70Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4h5q]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Rift_valley_fever_virus Rift valley fever virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4H5Q OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4H5Q FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4h5l\|4h5l]], [[4h5m\|4h5m]], [[4h5o\|4h5o]], [[4h5p\|4h5p]], [[4h6f\|4h6f]], [[4h6g\|4h6g]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">N ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11588 Rift Valley fever virus])</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=4h5q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4h5q OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4h5q RCSB], [http://www.ebi.ac.uk/pdbsum/4h5q PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Rift Valley fever and Toscana viruses are human pathogens for which no effective therapeutics exist. These and other phleboviruses have segmented negative-sense RNA genomes that are sequestered by a nucleocapsid protein (N) to form ribonucleoprotein (RNP) complexes of irregular, asymmetric structure, previously uncharacterized at high resolution. N binds nonspecifically to single-stranded RNA with nanomolar affinity. Crystal structures of Rift Valley fever virus N-RNA complexes reconstituted with defined RNAs of different length capture tetrameric, pentameric and hexameric N-RNA multimers. All N-N subunit contacts are mediated by a highly flexible alpha-helical arm. Arm movement gives rise to the three multimers in the crystal structures and also explains the asymmetric architecture of the RNP. Despite the flexible association of subunits, the crystal structures reveal an invariant, monomeric RNP building block, consisting of the core of one N subunit, the arm of a neighboring N, and four RNA nucleotides with the flanking phosphates. Up to three additional RNA nucleotides bind between subunits. The monomeric building block is matched in size to the repeating unit in viral RNP, as visualized by electron microscopy. N sequesters four RNA bases in a narrow hydrophobic binding slot and has polar contacts only with the sugar-phosphate backbone, which faces the solvent. All RNA bases, whether in the binding slot or in the subunit interface, face the protein in a manner that is incompatible with base pairing or with "reading" by the viral polymerase.

-	~~{{STRUCTURE_4h5q\| PDB=4h5q \| SCENE= }}~~	+	Phleboviruses encapsidate their genomes by sequestering RNA bases.,Raymond DD, Piper ME, Gerrard SR, Skiniotis G, Smith JL Proc Natl Acad Sci U S A. 2012 Nov 5. PMID:23129612<ref>PMID:23129612</ref>

-	~~===Crystal Structure~~ of ~~Rift Valley Fever Virus Nucleocapsid Protein Hexamer Bound to Single-stranded DNA===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_23129612}}~~	+	== References ==
-		+	<references/>
-	==~~About this Structure~~==	+	__TOC__
-	~~[[4h5q]] is a 4 chain structure with sequence from [http:~~//~~en.wikipedia.org/wiki/Rift_valley_fever_virus Rift valley fever virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4H5Q OCA].~~	+	</StructureSection>
	[[Category: Rift valley fever virus]]		[[Category: Rift valley fever virus]]
-	[[Category: Raymond, D D.]]	+	[[Category: Raymond, D D]]
-	[[Category: Smith, J L.]]	+	[[Category: Smith, J L]]
	[[Category: N protein]]		[[Category: N protein]]
	[[Category: Nucleocapsid protein]]		[[Category: Nucleocapsid protein]]

OCA at 09:33, 21 November 2012

2012-11-21T09:33:27Z

←Older revision		Revision as of 09:33, 21 November 2012
Line 1:		Line 1:
-	[[Image:4h5q.~~jpg~~\|left\|200px]]	+	[[Image:4h5q.png\|left\|200px]]

	{{STRUCTURE_4h5q\| PDB=4h5q \| SCENE= }}		{{STRUCTURE_4h5q\| PDB=4h5q \| SCENE= }}
Line 5:		Line 5:
	===Crystal Structure of Rift Valley Fever Virus Nucleocapsid Protein Hexamer Bound to Single-stranded DNA===		===Crystal Structure of Rift Valley Fever Virus Nucleocapsid Protein Hexamer Bound to Single-stranded DNA===

		+	{{ABSTRACT_PUBMED_23129612}}

	==About this Structure==		==About this Structure==

OCA at 14:04, 8 November 2012

2012-11-08T14:04:51Z

←Older revision		Revision as of 14:04, 8 November 2012
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:4h5q.jpg\|left\|200px]]

-	~~The entry~~ 4h5q ~~is ON HOLD~~ ~~until Paper Publication~~	+	{{STRUCTURE_4h5q\| PDB=4h5q \| SCENE= }}

-	~~Authors: Raymond, D.D., Smith, J.L.~~	+	===Crystal Structure of Rift Valley Fever Virus Nucleocapsid Protein Hexamer Bound to Single-stranded DNA===

-	~~Description: Crystal~~ Structure of Rift ~~Valley Fever Virus~~ Nucleocapsid ~~Protein Hexamer Bound to Single~~-~~stranded DNA~~	+
		+	==About this Structure==
		+	[[4h5q]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Rift_valley_fever_virus Rift valley fever virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4H5Q OCA].
		+	[[Category: Rift valley fever virus]]
		+	[[Category: Raymond, D D.]]
		+	[[Category: Smith, J L.]]
		+	[[Category: N protein]]
		+	[[Category: Nucleocapsid protein]]
		+	[[Category: Ribonucleoprotein]]
		+	[[Category: Rna binding]]
		+	[[Category: Rnp]]
		+	[[Category: Viral nucleoprotein]]
		+	[[Category: Viral protein-dna complex]]
		+	[[Category: Virus]]

OCA at 06:56, 10 October 2012

2012-10-10T06:56:20Z

←Older revision		Revision as of 06:56, 10 October 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4h5q is ON HOLD	+	The entry 4h5q is ON HOLD until Paper Publication

	Authors: Raymond, D.D., Smith, J.L.		Authors: Raymond, D.D., Smith, J.L.

	Description: Crystal Structure of Rift Valley Fever Virus Nucleocapsid Protein Hexamer Bound to Single-stranded DNA		Description: Crystal Structure of Rift Valley Fever Virus Nucleocapsid Protein Hexamer Bound to Single-stranded DNA

OCA: Protected "4h5q" [edit=sysop:move=sysop]

2012-09-26T20:13:25Z

Protected "4h5q" [edit=sysop:move=sysop]

←Older revision

Revision as of 20:13, 26 September 2012

OCA: New page: '''Unreleased structure''' The entry 4h5q is ON HOLD Authors: Raymond, D.D., Smith, J.L. Description: Crystal Structure of Rift Valley Fever Virus Nucleocapsid Protein Hexamer Bound to...

2012-09-26T20:13:24Z

New page: '''Unreleased structure''' The entry 4h5q is ON HOLD Authors: Raymond, D.D., Smith, J.L. Description: Crystal Structure of Rift Valley Fever Virus Nucleocapsid Protein Hexamer Bound to...

New page

'''Unreleased structure'''

The entry 4h5q is ON HOLD

Authors: Raymond, D.D., Smith, J.L.

Description: Crystal Structure of Rift Valley Fever Virus Nucleocapsid Protein Hexamer Bound to Single-stranded DNA