7v1h - Revision history

OCA at 17:19, 29 November 2023

OCA — Wed, 29 Nov 2023 17:19:04 GMT

←Older revision		Revision as of 17:19, 29 November 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7v1h]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Omsk_hemorrhagic_fever_virus Omsk hemorrhagic fever virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7V1H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7V1H FirstGlance]. <br>		<table><tr><td colspan='2'>[[7v1h]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Omsk_hemorrhagic_fever_virus Omsk hemorrhagic fever virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7V1H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7V1H FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MGP:7-METHYL-GUANOSINE-5-TRIPHOSPHATE'>MGP</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</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='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MGP:7-METHYL-GUANOSINE-5-TRIPHOSPHATE'>MGP</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</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=7v1h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7v1h OCA], [https://pdbe.org/7v1h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7v1h RCSB], [https://www.ebi.ac.uk/pdbsum/7v1h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7v1h 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=7v1h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7v1h OCA], [https://pdbe.org/7v1h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7v1h RCSB], [https://www.ebi.ac.uk/pdbsum/7v1h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7v1h ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/C4TPE0_OHFV C4TPE0_OHFV]] Functions as a signal peptide for NS4B and is required for the interferon antagonism activity of the latter.[ARBA:ARBA00003504] Serine protease subunit NS2B: Required cofactor for the serine protease function of NS3.[PROSITE-ProRule:PRU00859]	+	[https://www.uniprot.org/uniprot/C4TPE0_OHFV C4TPE0_OHFV] Functions as a signal peptide for NS4B and is required for the interferon antagonism activity of the latter.[ARBA:ARBA00003504] Serine protease subunit NS2B: Required cofactor for the serine protease function of NS3.[PROSITE-ProRule:PRU00859]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 06:26, 8 September 2022

OCA — Thu, 08 Sep 2022 06:26:56 GMT

←Older revision		Revision as of 06:26, 8 September 2022
Line 3:		Line 3:
	<StructureSection load='7v1h' size='340' side='right'caption='[[7v1h]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='7v1h' size='340' side='right'caption='[[7v1h]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7v1h]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7V1H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7V1H FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7v1h]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Omsk_hemorrhagic_fever_virus Omsk hemorrhagic fever virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7V1H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7V1H FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MGP:7-METHYL-GUANOSINE-5-TRIPHOSPHATE'>MGP</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MGP:7-METHYL-GUANOSINE-5-TRIPHOSPHATE'>MGP</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</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=7v1h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7v1h OCA], [https://pdbe.org/7v1h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7v1h RCSB], [https://www.ebi.ac.uk/pdbsum/7v1h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7v1h 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=7v1h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7v1h OCA], [https://pdbe.org/7v1h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7v1h RCSB], [https://www.ebi.ac.uk/pdbsum/7v1h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7v1h ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/C4TPE0_OHFV C4TPE0_OHFV]] Functions as a signal peptide for NS4B and is required for the interferon antagonism activity of the latter.[ARBA:ARBA00003504] Serine protease subunit NS2B: Required cofactor for the serine protease function of NS3.[PROSITE-ProRule:PRU00859]	+	[[https://www.uniprot.org/uniprot/C4TPE0_OHFV C4TPE0_OHFV]] Functions as a signal peptide for NS4B and is required for the interferon antagonism activity of the latter.[ARBA:ARBA00003504] Serine protease subunit NS2B: Required cofactor for the serine protease function of NS3.[PROSITE-ProRule:PRU00859]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 23:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Gong, P~~]]	+	[[Category: Omsk hemorrhagic fever virus]]
-	[[Category: ~~Jia, H~~]]	+	[[Category: Gong P]]
-	[[Category: ~~Guanylyltransferase]]~~	+	[[Category: Jia H]]
-	~~[[Category: Methyltransferase]]~~	+
-	~~[[Category: Transferase]]~~	+
-	~~[[Category: Viral protein~~]]	+

OCA at 05:28, 13 July 2022

OCA — Wed, 13 Jul 2022 05:28:15 GMT

←Older revision		Revision as of 05:28, 13 July 2022
Line 1:		Line 1:

	==Crystal structure of Omsk hemorrhagic fever virus NS5 MTase (in complex with SAM and m7GTP)==		==Crystal structure of Omsk hemorrhagic fever virus NS5 MTase (in complex with SAM and m7GTP)==
-	<StructureSection load='7v1h' size='340' side='right'caption='[[7v1h]]' scene=''>	+	<StructureSection load='7v1h' size='340' side='right'caption='[[7v1h]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7V1H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7V1H FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7v1h]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7V1H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7V1H 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=7v1h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7v1h OCA], [https://pdbe.org/7v1h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7v1h RCSB], [https://www.ebi.ac.uk/pdbsum/7v1h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7v1h ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MGP:7-METHYL-GUANOSINE-5-TRIPHOSPHATE'>MGP</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</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=7v1h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7v1h OCA], [https://pdbe.org/7v1h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7v1h RCSB], [https://www.ebi.ac.uk/pdbsum/7v1h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7v1h ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[https://www.uniprot.org/uniprot/C4TPE0_OHFV C4TPE0_OHFV]] Functions as a signal peptide for NS4B and is required for the interferon antagonism activity of the latter.[ARBA:ARBA00003504] Serine protease subunit NS2B: Required cofactor for the serine protease function of NS3.[PROSITE-ProRule:PRU00859]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The positive-sense flavivirus RNA genome bears a cap 1 structure essential for RNA stability and viral protein translation, and the formation of cap 1 requires the virally encoded nonstructural protein NS5 harboring guanylyltransferase (GTase), cap guanine N7 methyltransferase (N7 MTase), and 5'-nucleotide ribose 2'-O MTase activities in its single-domain MTase module. Despite numerous MTase-containing structures reported, the structural evidence for a critical GMP-enzyme intermediate formation and RNA repositioning when transitioning among different reactions is missing. Here, we report 10 high-resolution MTase crystal structures of Omsk hemorrhagic fever virus (OHFV), a representative high-consequence tick-borne flavivirus, capturing previously unidentified GMP-arginine adduct structures and a rarely observed capped RNA conformation. These structures help us thread capping events in the canonical model with a structure-based hypothesis involving the flipping of the 5' nucleotide, while the observation of an m(7)GMP-arginine adduct is compatible with an alternate capping model that decouples the N7 and 2'-O methylation steps. IMPORTANCE The methyltransferase (MTase) domain of flavivirus NS5 is unique in harboring guanylyltransferase (GTase), N7 MTase, and 2'-O MTase activities, playing a central role in viral RNA capping. However, the detailed mechanisms of the multistep capping process remain elusive. Here, we report 10 crystal structures of a flavivirus MTase to help understand the guanylyl transfer from GTP to the GTase itself and the transition between guanylyl transfer and methylation steps. In particular, a previously unobserved GMP-arginine covalent intermediate was captured multiple times in MTase crystal soaking trials with GTP present in the soaking solution, supporting its role in bridging the guanylyl transfer from GTP to the GTase and subsequent transfer to the 5'-diphosphate RNA.
		+
		+	Crystal Structures of Flavivirus NS5 Guanylyltransferase Reveal a GMP-Arginine Adduct.,Jia H, Zhong Y, Peng C, Gong P J Virol. 2022 Jun 27:e0041822. doi: 10.1128/jvi.00418-22. PMID:35758665<ref>PMID:35758665</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7v1h" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Gong P]]	+	[[Category: Gong, P]]
-	[[Category: Jia H]]	+	[[Category: Jia, H]]
		+	[[Category: Guanylyltransferase]]
		+	[[Category: Methyltransferase]]
		+	[[Category: Transferase]]
		+	[[Category: Viral protein]]

OCA at 05:11, 15 June 2022

OCA — Wed, 15 Jun 2022 05:11:50 GMT

←Older revision		Revision as of 05:11, 15 June 2022
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 7v1h ~~is ON HOLD until Paper Publication~~	+	==Crystal structure of Omsk hemorrhagic fever virus NS5 MTase (in complex with SAM and m7GTP)==
-		+	<StructureSection load='7v1h' size='340' side='right'caption='[[7v1h]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7V1H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7V1H FirstGlance]. <br>
-	~~Description~~:	+	</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=7v1h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7v1h OCA], [https://pdbe.org/7v1h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7v1h RCSB], [https://www.ebi.ac.uk/pdbsum/7v1h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7v1h ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Gong P]]
		+	[[Category: Jia H]]

OCA at 05:21, 25 August 2021

OCA — Wed, 25 Aug 2021 05:21:58 GMT

←Older revision		Revision as of 05:21, 25 August 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7v1h is ON HOLD	+	The entry 7v1h is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "7v1h" [edit=sysop:move=sysop]

OCA — Wed, 11 Aug 2021 05:14:46 GMT

Protected "7v1h" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:14, 11 August 2021

OCA: New page: '''Unreleased structure''' The entry 7v1h is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 11 Aug 2021 05:14:45 GMT

New page: '''Unreleased structure''' The entry 7v1h is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7v1h is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]