4g93 - Revision history

OCA at 11:26, 1 March 2024

OCA — Fri, 01 Mar 2024 11:26:12 GMT

←Older revision		Revision as of 11:26, 1 March 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4g93]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Hepatitis_B_virus_subtype_adyw Hepatitis B virus subtype adyw]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4G93 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4G93 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4g93]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Hepatitis_B_virus_subtype_adyw Hepatitis B virus subtype adyw]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4G93 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4G93 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=0YP:N-[(1E)-1-BROMO-1-(2-METHOXYPHENYL)-3-OXO-3-(PIPERIDIN-1-YL)PROP-1-EN-2-YL]-4-NITROBENZAMIDE'>0YP</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]] 4.2Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=0YP:N-[(1E)-1-BROMO-1-(2-METHOXYPHENYL)-3-OXO-3-(PIPERIDIN-1-YL)PROP-1-EN-2-YL]-4-NITROBENZAMIDE'>0YP</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=4g93 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4g93 OCA], [https://pdbe.org/4g93 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4g93 RCSB], [https://www.ebi.ac.uk/pdbsum/4g93 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4g93 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=4g93 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4g93 OCA], [https://pdbe.org/4g93 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4g93 RCSB], [https://www.ebi.ac.uk/pdbsum/4g93 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4g93 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/CAPSD_HBVD1 CAPSD_HBVD1] Self assembles to form an icosahedral capsid. Most capsid appear to be large particles with a icosahedral symmetry of T=4 and consist of 240 copies of capsid protein, though a fraction forms smaller T=3 particles consisting of 180 capsid proteins. Entering capsid are transported along microtubules to the nucleus. Phosphorylation of the capsid is thought to induce exposure of nuclear localization signal in the C-terminal portion of the capsid protein that allows binding to the nuclear pore complex via the importin (karyopherin-) alpha and beta. Capsids are imported in intact form through the nuclear pore into the nuclear basket, where it probably binds NUP153. Only capsids that contain the mature viral genome can release the viral DNA and capsid protein into the nucleoplasm. Immature capsids get stucked in the basket. Capsids encapsulate the pre-genomic RNA and the P protein. Pre-genomic RNA is reverse transcribed into DNA while the capsid is still in the cytoplasm. The capsid can then either be directed to the nucleus, providing more genome for transcription, or bud through the endoplasmic reticulum to provide new virions (By similarity).<ref>PMID:7711014</ref> Encapsidates hepatitis delta genome (By similarity).<ref>PMID:7711014</ref>		[https://www.uniprot.org/uniprot/CAPSD_HBVD1 CAPSD_HBVD1] Self assembles to form an icosahedral capsid. Most capsid appear to be large particles with a icosahedral symmetry of T=4 and consist of 240 copies of capsid protein, though a fraction forms smaller T=3 particles consisting of 180 capsid proteins. Entering capsid are transported along microtubules to the nucleus. Phosphorylation of the capsid is thought to induce exposure of nuclear localization signal in the C-terminal portion of the capsid protein that allows binding to the nuclear pore complex via the importin (karyopherin-) alpha and beta. Capsids are imported in intact form through the nuclear pore into the nuclear basket, where it probably binds NUP153. Only capsids that contain the mature viral genome can release the viral DNA and capsid protein into the nucleoplasm. Immature capsids get stucked in the basket. Capsids encapsulate the pre-genomic RNA and the P protein. Pre-genomic RNA is reverse transcribed into DNA while the capsid is still in the cytoplasm. The capsid can then either be directed to the nucleus, providing more genome for transcription, or bud through the endoplasmic reticulum to provide new virions (By similarity).<ref>PMID:7711014</ref> Encapsidates hepatitis delta genome (By similarity).<ref>PMID:7711014</ref>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Hepatitis B virus (HBV) is a major cause of liver disease. Assembly of the HBV capsid is a critical step in virus production and an attractive target for new antiviral therapies. We determined the structure of HBV capsid in complex with AT-130, a member of the phenylpropenamide family of assembly effectors. AT-130 causes tertiary and quaternary structural changes but does not disrupt capsid structure. AT-130 binds a hydrophobic pocket that also accommodates the previously characterized heteroaryldihydropyrimidine compounds but favors a unique quasiequivalent location on the capsid surface. Thus, this pocket is a promiscuous drug-binding site and a likely target for different assembly effectors with a broad range of mechanisms of activity. That AT-130 successfully decreases virus production by increasing capsid assembly rate without disrupting capsid structure delineates a paradigm in antiviral design, that disrupting reaction timing is a viable strategy for assembly effectors of HBV and other viruses.
-
-	Assembly-directed antivirals differentially bind quasiequivalent pockets to modify hepatitis B virus capsid tertiary and quaternary structure.,Katen SP, Tan Z, Chirapu SR, Finn MG, Zlotnick A Structure. 2013 Aug 6;21(8):1406-16. doi: 10.1016/j.str.2013.06.013. Epub 2013, Jul 18. PMID:23871485<ref>PMID:23871485</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 4g93" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 06:43, 26 October 2022

OCA — Wed, 26 Oct 2022 06:43:17 GMT

←Older revision		Revision as of 06:43, 26 October 2022
Line 1:		Line 1:

	==CRYSTAL STRUCTURE OF THE HUMAN HEPATITIS B VIRUS T = 4 CAPSID, ADYW STRAIN, in COMPLEX WITH THE PHENYLPROPENAMIDE ASSEMBLY ACCELERATOR AT-130==		==CRYSTAL STRUCTURE OF THE HUMAN HEPATITIS B VIRUS T = 4 CAPSID, ADYW STRAIN, in COMPLEX WITH THE PHENYLPROPENAMIDE ASSEMBLY ACCELERATOR AT-130==
-	<StructureSection load='4g93' size='340' side='right' caption='[[4g93]], [[Resolution\|resolution]] 4.20Å' scene=''>	+	<StructureSection load='4g93' size='340' side='right'caption='[[4g93]], [[Resolution\|resolution]] 4.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4g93]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Hbv-d Hbv-d~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4G93 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4G93 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4g93]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Hepatitis_B_virus_subtype_adyw Hepatitis B virus subtype adyw]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4G93 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4G93 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=0YP:N-[(1E)-1-BROMO-1-(2-METHOXYPHENYL)-3-OXO-3-(PIPERIDIN-1-YL)PROP-1-EN-2-YL]-4-NITROBENZAMIDE'>0YP</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=0YP:N-[(1E)-1-BROMO-1-(2-METHOXYPHENYL)-3-OXO-3-(PIPERIDIN-1-YL)PROP-1-EN-2-YL]-4-NITROBENZAMIDE'>0YP</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2g33\|2g33]], [[2g34\|2g34]]</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=4g93 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4g93 OCA], [https://pdbe.org/4g93 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4g93 RCSB], [https://www.ebi.ac.uk/pdbsum/4g93 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4g93 ProSAT]</span></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10419 HBV-D])~~</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=4g93 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4g93 OCA], [~~http~~://pdbe.org/4g93 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4g93 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4g93 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4g93 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/CAPSD_HBVD1 CAPSD_HBVD1]] Self assembles to form an icosahedral capsid. Most capsid appear to be large particles with a icosahedral symmetry of T=4 and consist of 240 copies of capsid protein, though a fraction forms smaller T=3 particles consisting of 180 capsid proteins. Entering capsid are transported along microtubules to the nucleus. Phosphorylation of the capsid is thought to induce exposure of nuclear localization signal in the C-terminal portion of the capsid protein that allows binding to the nuclear pore complex via the importin (karyopherin-) alpha and beta. Capsids are imported in intact form through the nuclear pore into the nuclear basket, where it probably binds NUP153. Only capsids that contain the mature viral genome can release the viral DNA and capsid protein into the nucleoplasm. Immature capsids get stucked in the basket. Capsids encapsulate the pre-genomic RNA and the P protein. Pre-genomic RNA is reverse transcribed into DNA while the capsid is still in the cytoplasm. The capsid can then either be directed to the nucleus, providing more genome for transcription, or bud through the endoplasmic reticulum to provide new virions (By similarity).<ref>PMID:7711014</ref> Encapsidates hepatitis delta genome (By similarity).<ref>PMID:7711014</ref>	+	[https://www.uniprot.org/uniprot/CAPSD_HBVD1 CAPSD_HBVD1] Self assembles to form an icosahedral capsid. Most capsid appear to be large particles with a icosahedral symmetry of T=4 and consist of 240 copies of capsid protein, though a fraction forms smaller T=3 particles consisting of 180 capsid proteins. Entering capsid are transported along microtubules to the nucleus. Phosphorylation of the capsid is thought to induce exposure of nuclear localization signal in the C-terminal portion of the capsid protein that allows binding to the nuclear pore complex via the importin (karyopherin-) alpha and beta. Capsids are imported in intact form through the nuclear pore into the nuclear basket, where it probably binds NUP153. Only capsids that contain the mature viral genome can release the viral DNA and capsid protein into the nucleoplasm. Immature capsids get stucked in the basket. Capsids encapsulate the pre-genomic RNA and the P protein. Pre-genomic RNA is reverse transcribed into DNA while the capsid is still in the cytoplasm. The capsid can then either be directed to the nucleus, providing more genome for transcription, or bud through the endoplasmic reticulum to provide new virions (By similarity).<ref>PMID:7711014</ref> Encapsidates hepatitis delta genome (By similarity).<ref>PMID:7711014</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Hbv-d~~]]	+	[[Category: Hepatitis B virus subtype adyw]]
-	[[Category: ~~Katen, S P~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Zlotnick, A~~]]	+	[[Category: Katen SP]]
-	[[Category: ~~Assembly accelerator]]~~	+	[[Category: Zlotnick A]]
-	~~[[Category: Assembly effector]]~~	+
-	~~[[Category: Capsid]]~~	+
-	~~[[Category: Hepadnavirus]]~~	+
-	~~[[Category: Icosahedral]]~~	+
-	~~[[Category: Kinetic effector]]~~	+
-	~~[[Category: Phenylpropenamide]]~~	+
-	~~[[Category: Virus]]~~	+
-	~~[[Category: Virus-inhibitor complex~~]]	+

OCA at 22:36, 5 August 2016

OCA — Fri, 05 Aug 2016 22:36:26 GMT

←Older revision		Revision as of 22:36, 5 August 2016
Line 1:		Line 1:
		+
	==CRYSTAL STRUCTURE OF THE HUMAN HEPATITIS B VIRUS T = 4 CAPSID, ADYW STRAIN, in COMPLEX WITH THE PHENYLPROPENAMIDE ASSEMBLY ACCELERATOR AT-130==		==CRYSTAL STRUCTURE OF THE HUMAN HEPATITIS B VIRUS T = 4 CAPSID, ADYW STRAIN, in COMPLEX WITH THE PHENYLPROPENAMIDE ASSEMBLY ACCELERATOR AT-130==
	<StructureSection load='4g93' size='340' side='right' caption='[[4g93]], [[Resolution\|resolution]] 4.20Å' scene=''>		<StructureSection load='4g93' size='340' side='right' caption='[[4g93]], [[Resolution\|resolution]] 4.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4g93]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Hepatitis_b_virus_subtype_adyw Hepatitis b virus subtype adyw~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4G93 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4G93 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4g93]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Hbv-d Hbv-d]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4G93 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4G93 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=0YP:N-[(1E)-1-BROMO-1-(2-METHOXYPHENYL)-3-OXO-3-(PIPERIDIN-1-YL)PROP-1-EN-2-YL]-4-NITROBENZAMIDE'>0YP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=0YP:N-[(1E)-1-BROMO-1-(2-METHOXYPHENYL)-3-OXO-3-(PIPERIDIN-1-YL)PROP-1-EN-2-YL]-4-NITROBENZAMIDE'>0YP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2g33\|2g33]], [[2g34\|2g34]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2g33\|2g33]], [[2g34\|2g34]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10419 ~~Hepatitis B virus subtype adyw~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10419 HBV-D])</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=4g93 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4g93 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4g93 RCSB], [http://www.ebi.ac.uk/pdbsum/4g93 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=4g93 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4g93 OCA], [http://pdbe.org/4g93 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4g93 RCSB], [http://www.ebi.ac.uk/pdbsum/4g93 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4g93 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	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 4g93" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Hepatitis b virus subtype adyw~~]]	+	[[Category: Hbv-d]]
	[[Category: Katen, S P]]		[[Category: Katen, S P]]
	[[Category: Zlotnick, A]]		[[Category: Zlotnick, A]]

OCA at 06:26, 25 December 2014

OCA — Thu, 25 Dec 2014 06:26:33 GMT

←Older revision		Revision as of 06:26, 25 December 2014
Line 8:		Line 8:
	<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=4g93 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4g93 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4g93 RCSB], [http://www.ebi.ac.uk/pdbsum/4g93 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=4g93 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4g93 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4g93 RCSB], [http://www.ebi.ac.uk/pdbsum/4g93 PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CAPSD_HBVD1 CAPSD_HBVD1]] Self assembles to form an icosahedral capsid. Most capsid appear to be large particles with a icosahedral symmetry of T=4 and consist of 240 copies of capsid protein, though a fraction forms smaller T=3 particles consisting of 180 capsid proteins. Entering capsid are transported along microtubules to the nucleus. Phosphorylation of the capsid is thought to induce exposure of nuclear localization signal in the C-terminal portion of the capsid protein that allows binding to the nuclear pore complex via the importin (karyopherin-) alpha and beta. Capsids are imported in intact form through the nuclear pore into the nuclear basket, where it probably binds NUP153. Only capsids that contain the mature viral genome can release the viral DNA and capsid protein into the nucleoplasm. Immature capsids get stucked in the basket. Capsids encapsulate the pre-genomic RNA and the P protein. Pre-genomic RNA is reverse transcribed into DNA while the capsid is still in the cytoplasm. The capsid can then either be directed to the nucleus, providing more genome for transcription, or bud through the endoplasmic reticulum to provide new virions (By similarity).<ref>PMID:7711014</ref> Encapsidates hepatitis delta genome (By similarity).<ref>PMID:7711014</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 11:01, 21 December 2014

OCA — Sun, 21 Dec 2014 11:01:22 GMT

←Older revision		Revision as of 11:01, 21 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_4g93\| PDB=4g93 \| SCENE= }}~~	+	==CRYSTAL STRUCTURE OF THE HUMAN HEPATITIS B VIRUS T = 4 CAPSID, ADYW STRAIN, in COMPLEX WITH THE PHENYLPROPENAMIDE ASSEMBLY ACCELERATOR AT-130==
-	===CRYSTAL STRUCTURE OF THE HUMAN HEPATITIS B VIRUS T = 4 CAPSID, ADYW STRAIN, in COMPLEX WITH THE PHENYLPROPENAMIDE ASSEMBLY ACCELERATOR AT-130===	+	<StructureSection load='4g93' size='340' side='right' caption='[[4g93]], [[Resolution\|resolution]] 4.20Å' scene=''>
-	~~{{ABSTRACT_PUBMED_23871485}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4g93]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Hepatitis_b_virus_subtype_adyw Hepatitis b virus subtype adyw]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4G93 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4G93 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=0YP:N-[(1E)-1-BROMO-1-(2-METHOXYPHENYL)-3-OXO-3-(PIPERIDIN-1-YL)PROP-1-EN-2-YL]-4-NITROBENZAMIDE'>0YP</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2g33\|2g33]], [[2g34\|2g34]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10419 Hepatitis B virus subtype adyw])</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=4g93 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4g93 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4g93 RCSB], [http://www.ebi.ac.uk/pdbsum/4g93 PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Hepatitis B virus (HBV) is a major cause of liver disease. Assembly of the HBV capsid is a critical step in virus production and an attractive target for new antiviral therapies. We determined the structure of HBV capsid in complex with AT-130, a member of the phenylpropenamide family of assembly effectors. AT-130 causes tertiary and quaternary structural changes but does not disrupt capsid structure. AT-130 binds a hydrophobic pocket that also accommodates the previously characterized heteroaryldihydropyrimidine compounds but favors a unique quasiequivalent location on the capsid surface. Thus, this pocket is a promiscuous drug-binding site and a likely target for different assembly effectors with a broad range of mechanisms of activity. That AT-130 successfully decreases virus production by increasing capsid assembly rate without disrupting capsid structure delineates a paradigm in antiviral design, that disrupting reaction timing is a viable strategy for assembly effectors of HBV and other viruses.

-	~~==Function==~~	+	Assembly-directed antivirals differentially bind quasiequivalent pockets to modify hepatitis B virus capsid tertiary and quaternary structure.,Katen SP, Tan Z, Chirapu SR, Finn MG, Zlotnick A Structure. 2013 Aug 6;21(8):1406-16. doi: 10.1016/j.str.2013.06.013. Epub 2013, Jul 18. PMID:23871485<ref>PMID:23871485</ref>
-	~~[[http://www.uniprot.org/uniprot/CAPSD_HBVD1 CAPSD_HBVD1]] Self assembles~~ to ~~form an icosahedral~~ capsid. ~~Most capsid appear to be large particles with a icosahedral symmetry of T=4 and consist of 240 copies of capsid protein~~, ~~though a fraction forms smaller T=3 particles consisting of 180 capsid proteins~~. Entering capsid are transported along microtubules to the nucleus. Phosphorylation of the capsid is thought to induce exposure of nuclear localization signal in the C-terminal portion of the capsid protein that allows binding to the nuclear pore complex via the importin (~~karyopherin~~-~~) alpha and beta~~. ~~Capsids are imported in intact form through the nuclear pore into the nuclear basket, where it probably binds NUP153~~. ~~Only capsids that contain the mature viral genome can release the viral DNA and capsid protein into the nucleoplasm~~. ~~Immature capsids get stucked in the basket~~. ~~Capsids encapsulate the pre-genomic RNA and the P protein~~. ~~Pre-genomic RNA is reverse transcribed into DNA while the capsid is still in the cytoplasm~~. ~~The capsid can then either be directed to the nucleus~~, ~~providing more genome for transcription, or bud through the endoplasmic reticulum to provide new virions (By similarity)~~.~~<ref>~~PMID:~~7711014</ref> Encapsidates hepatitis delta genome (By similarity).~~<ref>PMID:~~7711014~~</ref>	+

-	~~==About this Structure==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[4g93]] is~~ a ~~4 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Hepatitis_b_virus_subtype_adyw Hepatitis b virus subtype adyw]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=4G93 OCA].~~	+	</div>
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	~~<ref group="xtra">PMID:023871485</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Hepatitis b virus subtype adyw]]		[[Category: Hepatitis b virus subtype adyw]]
-	[[Category: Katen, S P.]]	+	[[Category: Katen, S P]]
-	[[Category: Zlotnick, A.]]	+	[[Category: Zlotnick, A]]
	[[Category: Assembly accelerator]]		[[Category: Assembly accelerator]]
	[[Category: Assembly effector]]		[[Category: Assembly effector]]

OCA at 04:02, 12 September 2013

OCA — Thu, 12 Sep 2013 04:02:11 GMT

←Older revision		Revision as of 04:02, 12 September 2013
Line 1:		Line 1:
	{{STRUCTURE_4g93\| PDB=4g93 \| SCENE= }}		{{STRUCTURE_4g93\| PDB=4g93 \| SCENE= }}
	===CRYSTAL STRUCTURE OF THE HUMAN HEPATITIS B VIRUS T = 4 CAPSID, ADYW STRAIN, in COMPLEX WITH THE PHENYLPROPENAMIDE ASSEMBLY ACCELERATOR AT-130===		===CRYSTAL STRUCTURE OF THE HUMAN HEPATITIS B VIRUS T = 4 CAPSID, ADYW STRAIN, in COMPLEX WITH THE PHENYLPROPENAMIDE ASSEMBLY ACCELERATOR AT-130===
		+	{{ABSTRACT_PUBMED_23871485}}

	==Function==		==Function==
Line 9:		Line 10:

	==Reference==		==Reference==
-	<references group="xtra"/><references/>	+	<ref group="xtra">PMID:023871485</ref><references group="xtra"/><references/>
	[[Category: Hepatitis b virus subtype adyw]]		[[Category: Hepatitis b virus subtype adyw]]
	[[Category: Katen, S P.]]		[[Category: Katen, S P.]]

OCA at 13:04, 24 July 2013

OCA — Wed, 24 Jul 2013 13:04:16 GMT

←Older revision		Revision as of 13:04, 24 July 2013
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{STRUCTURE_4g93\| PDB=4g93 \| SCENE= }}
		+	===CRYSTAL STRUCTURE OF THE HUMAN HEPATITIS B VIRUS T = 4 CAPSID, ADYW STRAIN, in COMPLEX WITH THE PHENYLPROPENAMIDE ASSEMBLY ACCELERATOR AT-130===

-	~~The entry 4g93~~ is ~~ON HOLD~~ ~~until Jul 24 2014~~	+	==Function==
		+	[[http://www.uniprot.org/uniprot/CAPSD_HBVD1 CAPSD_HBVD1]] Self assembles to form an icosahedral capsid. Most capsid appear to be large particles with a icosahedral symmetry of T=4 and consist of 240 copies of capsid protein, though a fraction forms smaller T=3 particles consisting of 180 capsid proteins. Entering capsid are transported along microtubules to the nucleus. Phosphorylation of the capsid is thought to induce exposure of nuclear localization signal in the C-terminal portion of the capsid protein that allows binding to the nuclear pore complex via the importin (karyopherin-) alpha and beta. Capsids are imported in intact form through the nuclear pore into the nuclear basket, where it probably binds NUP153. Only capsids that contain the mature viral genome can release the viral DNA and capsid protein into the nucleoplasm. Immature capsids get stucked in the basket. Capsids encapsulate the pre-genomic RNA and the P protein. Pre-genomic RNA is reverse transcribed into DNA while the capsid is still in the cytoplasm. The capsid can then either be directed to the nucleus, providing more genome for transcription, or bud through the endoplasmic reticulum to provide new virions (By similarity).<ref>PMID:7711014</ref> Encapsidates hepatitis delta genome (By similarity).<ref>PMID:7711014</ref>

-	~~Authors~~: ~~Katen, S~~.P.~~, Zlotnick, A~~.	+	==About this Structure==
		+	[[4g93]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Hepatitis_b_virus_subtype_adyw Hepatitis b virus subtype adyw]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4G93 OCA].

-	~~Description: CRYSTAL STRUCTURE OF THE HUMAN HEPATITIS B VIRUS T~~ = ~~4 CAPSID~~, ~~ADYW STRAIN~~, ~~in COMPLEX WITH THE PHENYLPROPENAMIDE ASSEMBLY ACCELERATOR AT~~-~~130~~	+	==Reference==
		+	<references group="xtra"/><references/>
		+	[[Category: Hepatitis b virus subtype adyw]]
		+	[[Category: Katen, S P.]]
		+	[[Category: Zlotnick, A.]]
		+	[[Category: Assembly accelerator]]
		+	[[Category: Assembly effector]]
		+	[[Category: Capsid]]
		+	[[Category: Hepadnavirus]]
		+	[[Category: Icosahedral]]
		+	[[Category: Kinetic effector]]
		+	[[Category: Phenylpropenamide]]
		+	[[Category: Virus]]
		+	[[Category: Virus-inhibitor complex]]

OCA at 14:47, 10 July 2013

OCA — Wed, 10 Jul 2013 14:47:59 GMT

←Older revision		Revision as of 14:47, 10 July 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4g93 is ON HOLD until ~~Paper Publication~~	+	The entry 4g93 is ON HOLD until Jul 24 2014

	Authors: Katen, S.P., Zlotnick, A.		Authors: Katen, S.P., Zlotnick, A.

	Description: CRYSTAL STRUCTURE OF THE HUMAN HEPATITIS B VIRUS T = 4 CAPSID, ADYW STRAIN, in COMPLEX WITH THE PHENYLPROPENAMIDE ASSEMBLY ACCELERATOR AT-130		Description: CRYSTAL STRUCTURE OF THE HUMAN HEPATITIS B VIRUS T = 4 CAPSID, ADYW STRAIN, in COMPLEX WITH THE PHENYLPROPENAMIDE ASSEMBLY ACCELERATOR AT-130

OCA at 06:43, 16 May 2013

OCA — Thu, 16 May 2013 06:43:56 GMT

←Older revision		Revision as of 06:43, 16 May 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4g93 is ON HOLD	+	The entry 4g93 is ON HOLD until Paper Publication

	Authors: Katen, S.P., Zlotnick, A.		Authors: Katen, S.P., Zlotnick, A.

	Description: CRYSTAL STRUCTURE OF THE HUMAN HEPATITIS B VIRUS T = 4 CAPSID, ADYW STRAIN, in COMPLEX WITH THE PHENYLPROPENAMIDE ASSEMBLY ACCELERATOR AT-130		Description: CRYSTAL STRUCTURE OF THE HUMAN HEPATITIS B VIRUS T = 4 CAPSID, ADYW STRAIN, in COMPLEX WITH THE PHENYLPROPENAMIDE ASSEMBLY ACCELERATOR AT-130

OCA at 05:23, 15 August 2012

OCA — Wed, 15 Aug 2012 05:23:24 GMT

←Older revision		Revision as of 05:23, 15 August 2012
Line 3:		Line 3:
	The entry 4g93 is ON HOLD		The entry 4g93 is ON HOLD

-	Authors: ~~KATEN~~, S.P., ~~ZLOTNICK~~, A.	+	Authors: Katen, S.P., Zlotnick, A.

-	Description: CRYSTAL STRUCTURE OF THE HUMAN HEPATITIS B VIRUS T = 4 CAPSID, ADYW STRAIN, IN COMPLEX WITH THE PHENYLPROPENAMIDE ASSEMBLY ACCELERATOR AT-130	+	Description: CRYSTAL STRUCTURE OF THE HUMAN HEPATITIS B VIRUS T = 4 CAPSID, ADYW STRAIN, in COMPLEX WITH THE PHENYLPROPENAMIDE ASSEMBLY ACCELERATOR AT-130