5l14 - Revision history

OCA at 12:46, 4 October 2023

OCA — Wed, 04 Oct 2023 12:46:33 GMT

←Older revision		Revision as of 12:46, 4 October 2023
Line 3:		Line 3:
	<StructureSection load='5l14' size='340' side='right'caption='[[5l14]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='5l14' size='340' side='right'caption='[[5l14]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5l14]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Influenza_a_virus_~~(a/~~shanghai~~/02/2013(~~h7n9~~)) Influenza a virus (a/~~shanghai~~/02/2013(~~h7n9~~))]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5L14 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5L14 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5l14]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Influenza_A_virus_(A/Shanghai/02/2013(H7N9)) Influenza A virus (A/Shanghai/02/2013(H7N9))]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5L14 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5L14 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=BMA:BETA~~-~~D-MANNOSE'>BMA</scene>~~, ~~<scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</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]] 1.9Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[5l15\|5l15]], [[5l17\|5l17]], [[5l18\|5l18]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~"><~~b>[[Gene\|Gene~~:~~]]</b~~></td><~~td class~~=~~"sblockDat">NA ([http~~:~~//www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1332244 Influenza A virus (A/Shanghai/02/2013(H7N9))])</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=5l14 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5l14 OCA], [https://pdbe.org/5l14 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5l14 RCSB], [https://www.ebi.ac.uk/pdbsum/5l14 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5l14 ProSAT]</span></td></tr>
-	<~~tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks'>[http~~:~~//en.wikipedia.org/wiki/Exo~~-~~alpha~~-~~sialidase Exo~~-~~alpha-sialidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.18 3.2.1.18]~~ </~~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=5l14 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5l14 OCA], [~~http~~://pdbe.org/5l14 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5l14 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5l14 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5l14 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/R4NFR6_9INFA R4NFR6_9INFA]] Catalyzes the removal of terminal sialic acid residues from viral and cellular glycoconjugates.[RuleBase:RU361252]	+	[https://www.uniprot.org/uniprot/R4NFR6_9INFA R4NFR6_9INFA] Catalyzes the removal of terminal sialic acid residues from viral and cellular glycoconjugates.[RuleBase:RU361252]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 28:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Exo-alpha-sialidase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Stevens, J]]	+	[[Category: Stevens J]]
-	[[Category: Yang, H]]	+	[[Category: Yang H]]
-	~~[[Category: H7n9]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Neuraminidase~~]]	+

OCA at 06:39, 5 August 2020

OCA — Wed, 05 Aug 2020 06:39:29 GMT

←Older revision		Revision as of 06:39, 5 August 2020
Line 1:		Line 1:

	==The crystal structure of neuraminidase from A/Shanghai/2/2013 (H7N9) influenza virus==		==The crystal structure of neuraminidase from A/Shanghai/2/2013 (H7N9) influenza virus==
-	<StructureSection load='5l14' size='340' side='right' caption='[[5l14]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='5l14' size='340' side='right'caption='[[5l14]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5l14]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5L14 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5L14 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5l14]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Influenza_a_virus_(a/shanghai/02/2013(h7n9)) Influenza a virus (a/shanghai/02/2013(h7n9))]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5L14 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5L14 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=~~MAN~~:~~ALPHA~~-D-~~MANNOSE~~'>~~MAN~~</scene>, <scene name='pdbligand=~~NAG~~:~~N-ACETYL~~-D-~~GLUCOSAMINE~~'>~~NAG~~</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5l15\|5l15]], [[5l17\|5l17]], [[5l18\|5l18]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5l15\|5l15]], [[5l17\|5l17]], [[5l18\|5l18]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1332244 Influenza A virus (A/Shanghai/02/2013(H7N9))])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Exo-alpha-sialidase Exo-alpha-sialidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.18 3.2.1.18] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Exo-alpha-sialidase Exo-alpha-sialidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.18 3.2.1.18] </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=5l14 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5l14 OCA], [http://pdbe.org/5l14 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5l14 RCSB], [http://www.ebi.ac.uk/pdbsum/5l14 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5l14 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=5l14 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5l14 OCA], [http://pdbe.org/5l14 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5l14 RCSB], [http://www.ebi.ac.uk/pdbsum/5l14 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5l14 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 22:		Line 23:

	==See Also==		==See Also==
-	*[[Neuraminidase\|Neuraminidase]]	+	*[[Neuraminidase 3D structures\|Neuraminidase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 28:		Line 29:
	</StructureSection>		</StructureSection>
	[[Category: Exo-alpha-sialidase]]		[[Category: Exo-alpha-sialidase]]
		+	[[Category: Large Structures]]
	[[Category: Stevens, J]]		[[Category: Stevens, J]]
	[[Category: Yang, H]]		[[Category: Yang, H]]

OCA at 09:11, 4 October 2017

OCA — Wed, 04 Oct 2017 09:11:28 GMT

←Older revision		Revision as of 09:11, 4 October 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	The ~~entry~~ 5l14 is ~~ON HOLD until Paper~~ Publication	+	==The crystal structure of neuraminidase from A/Shanghai/2/2013 (H7N9) influenza virus==
		+	<StructureSection load='5l14' size='340' side='right' caption='[[5l14]], [[Resolution\|resolution]] 1.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5l14]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5L14 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5L14 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5l15\|5l15]], [[5l17\|5l17]], [[5l18\|5l18]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Exo-alpha-sialidase Exo-alpha-sialidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.18 3.2.1.18] </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=5l14 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5l14 OCA], [http://pdbe.org/5l14 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5l14 RCSB], [http://www.ebi.ac.uk/pdbsum/5l14 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5l14 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/R4NFR6_9INFA R4NFR6_9INFA]] Catalyzes the removal of terminal sialic acid residues from viral and cellular glycoconjugates.[RuleBase:RU361252]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Background: Neuraminidase (NA) inhibitors are the recommended antiviral medications for influenza treatment. However, their therapeutic efficacy can be compromised by NA changes that emerge naturally and/or following antiviral treatment. Knowledge of which molecular changes confer drug resistance of influenza A(H7N9) viruses (group 2NA) remains sparse. Methods: Fourteen amino acid substitutions were introduced into the NA of A/Shanghai/2/2013(H7N9). Recombinant N9 (recN9) proteins were expressed in a baculovirus system in insect cells and tested using the Centers for Disease Control and Prevention standardized NA inhibition (NI) assay with oseltamivir, zanamivir, peramivir, and laninamivir. The wild-type N9 crystal structure was determined in complex with oseltamivir, zanamivir, or sialic acid, and structural analysis was performed. Results: All substitutions conferred either reduced or highly reduced inhibition by at least 1 NA inhibitor; half of them caused reduced inhibition or highly reduced inhibition by all NA inhibitors. R292K conferred the highest increase in oseltamivir half-maximal inhibitory concentration (IC50), and E119D conferred the highest zanamivir IC50. Unlike N2 (another group 2NA), H274Y conferred highly reduced inhibition by oseltamivir. Additionally, R152K, a naturally occurring variation at the NA catalytic residue of A(H7N9) viruses, conferred reduced inhibition by laninamivir. Conclusions: The recNA method is a valuable tool for assessing the effect of NA changes on drug susceptibility of emerging influenza viruses.

-	~~Authors: Yang~~, H., ~~Stevens~~, J.	+	Drug Susceptibility Evaluation of an Influenza A(H7N9) Virus by Analyzing Recombinant Neuraminidase Proteins.,Gubareva LV, Sleeman K, Guo Z, Yang H, Hodges E, Davis CT, Baranovich T, Stevens J J Infect Dis. 2017 Sep 15;216(suppl_4):S566-S574. doi: 10.1093/infdis/jiw625. PMID:28934455<ref>PMID:28934455</ref>

-	~~Description: The crystal structure~~ of ~~neuraminidase from A~~/~~Shanghai/2~~/~~2013 (H7N9) influenza virus~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[~~Category: Unreleased Structures~~]]	+	</div>
-	[[Category: ~~Yang, H~~]]	+	<div class="pdbe-citations 5l14" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Neuraminidase\|Neuraminidase]]
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Exo-alpha-sialidase]]
	[[Category: Stevens, J]]		[[Category: Stevens, J]]
		+	[[Category: Yang, H]]
		+	[[Category: H7n9]]
		+	[[Category: Hydrolase]]
		+	[[Category: Neuraminidase]]

OCA at 15:24, 26 October 2016

OCA — Wed, 26 Oct 2016 15:24:31 GMT

←Older revision		Revision as of 15:24, 26 October 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5l14 is ON HOLD	+	The entry 5l14 is ON HOLD until Paper Publication

	Authors: Yang, H., Stevens, J.		Authors: Yang, H., Stevens, J.

OCA at 13:58, 10 August 2016

OCA — Wed, 10 Aug 2016 13:58:38 GMT

←Older revision		Revision as of 13:58, 10 August 2016
Line 5:		Line 5:
	Authors: Yang, H., Stevens, J.		Authors: Yang, H., Stevens, J.

-	Description: The crystal structure of neuraminidase from A/Shanghai/2/2013 (H7N9)influenza virus.	+	Description: The crystal structure of neuraminidase from A/Shanghai/2/2013 (H7N9) influenza virus
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Yang, H]]		[[Category: Yang, H]]
	[[Category: Stevens, J]]		[[Category: Stevens, J]]

OCA: Protected "5l14" [edit=sysop:move=sysop]

OCA — Thu, 04 Aug 2016 02:21:34 GMT

Protected "5l14" [edit=sysop:move=sysop]

←Older revision

Revision as of 02:21, 4 August 2016

OCA: New page: '''Unreleased structure''' The entry 5l14 is ON HOLD Authors: Yang, H., Stevens, J. Description: The crystal structure of neuraminidase from A/Shanghai/2/2013 (H7N9)influenza virus. [[...

OCA — Thu, 04 Aug 2016 02:21:33 GMT

New page: '''Unreleased structure''' The entry 5l14 is ON HOLD Authors: Yang, H., Stevens, J. Description: The crystal structure of neuraminidase from A/Shanghai/2/2013 (H7N9)influenza virus. [[...

New page

'''Unreleased structure'''

The entry 5l14 is ON HOLD

Authors: Yang, H., Stevens, J.

Description: The crystal structure of neuraminidase from A/Shanghai/2/2013 (H7N9)influenza virus.
[[Category: Unreleased Structures]]
[[Category: Yang, H]]
[[Category: Stevens, J]]