2b5l - Revision history

OCA at 07:34, 23 August 2023

2023-08-23T07:34:06Z

←Older revision		Revision as of 07:34, 23 August 2023
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	<StructureSection load='2b5l' size='340' side='right'caption='[[2b5l]], [[Resolution\|resolution]] 2.85Å' scene=''>		<StructureSection load='2b5l' size='340' side='right'caption='[[2b5l]], [[Resolution\|resolution]] 2.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2b5l]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/ ] and [https://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B5L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2B5L FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2b5l]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Mammalian_orthorubulavirus_5 Mammalian orthorubulavirus 5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B5L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2B5L FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 2.85Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[2b5m\|2b5m]], [[2b5n\|2b5n]]~~</~~div~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</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=2b5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b5l OCA], [https://pdbe.org/2b5l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2b5l RCSB], [https://www.ebi.ac.uk/pdbsum/2b5l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2b5l 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=2b5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b5l OCA], [https://pdbe.org/2b5l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2b5l RCSB], [https://www.ebi.ac.uk/pdbsum/2b5l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2b5l ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/~~V_SV5 V_SV5~~]~~] Blocks host interferon signaling~~. ~~Induces~~ the ~~ubiquitination and subsequent proteasome~~-~~mediated degradation of host STAT1. Acts as an adapter, linking host DDB1~~-~~Cullin 4 to STAT2/STAT1~~ complex. ~~There is an absolute requirement~~ of ~~STAT2 in STAT1 degradation, as V~~ binds ~~specifically~~ to ~~STAT2~~. ~~Might act~~ as a ~~chaperone keeping~~ the ~~viral nucleoprotein soluble~~. ~~Interacts with host IFIH1/MDA5 to block its activity in~~ the ~~transduction pathway which leads to~~ the ~~activation~~ of ~~IFN~~-~~beta promoter~~, ~~thus protecting~~ the ~~virus against cell antiviral state~~.<ref>PMID:~~15950997~~</ref>	+	[https://www.uniprot.org/uniprot/DDB1_HUMAN DDB1_HUMAN] Required for DNA repair. Binds to DDB2 to form the UV-damaged DNA-binding protein complex (the UV-DDB complex). The UV-DDB complex may recognize UV-induced DNA damage and recruit proteins of the nucleotide excision repair pathway (the NER pathway) to initiate DNA repair. The UV-DDB complex preferentially binds to cyclobutane pyrimidine dimers (CPD), 6-4 photoproducts (6-4 PP), apurinic sites and short mismatches. Also appears to function as a component of numerous distinct DCX (DDB1-CUL4-X-box) E3 ubiquitin-protein ligase complexes which mediate the ubiquitination and subsequent proteasomal degradation of target proteins. The functional specificity of the DCX E3 ubiquitin-protein ligase complex is determined by the variable substrate recognition component recruited by DDB1. DCX(DDB2) (also known as DDB1-CUL4-ROC1, CUL4-DDB-ROC1 and CUL4-DDB-RBX1) may ubiquitinate histone H2A, histone H3 and histone H4 at sites of UV-induced DNA damage. The ubiquitination of histones may facilitate their removal from the nucleosome and promote subsequent DNA repair. DCX(DDB2) also ubiquitinates XPC, which may enhance DNA-binding by XPC and promote NER. DCX(DTL) plays a role in PCNA-dependent polyubiquitination of CDT1 and MDM2-dependent ubiquitination of TP53 in response to radiation-induced DNA damage and during DNA replication. DCX(ERCC8) (the CSA complex) plays a role in transcription-coupled repair (TCR). May also play a role in ubiquitination of CDKN1B/p27kip when associated with CUL4 and SKP2.<ref>PMID:12732143</ref> <ref>PMID:15448697</ref> <ref>PMID:14739464</ref> <ref>PMID:15882621</ref> <ref>PMID:16260596</ref> <ref>PMID:16482215</ref> <ref>PMID:17079684</ref> <ref>PMID:16407242</ref> <ref>PMID:16407252</ref> <ref>PMID:16678110</ref> <ref>PMID:16940174</ref> <ref>PMID:17041588</ref> <ref>PMID:16473935</ref> <ref>PMID:18593899</ref> <ref>PMID:18381890</ref> <ref>PMID:18332868</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Chen, X]]	+	[[Category: Mammalian orthorubulavirus 5]]
-	[[Category: Garbutt~~, K C~~]]	+	[[Category: Chen X]]
-	[[Category: Li, T]]	+	[[Category: Garbutt KC]]
-	[[Category: Zheng, N]]	+	[[Category: Li T]]
-	[[Category: Zhou, P]]	+	[[Category: Zheng N]]
-	~~[[Category: Beta propeller]]~~	+	[[Category: Zhou P]]
-	~~[[Category: Ddb1]]~~	+
-	~~[[Category: Propeller cluster]]~~	+
-	~~[[Category: Protein binding-viral protein complex]]~~	+
-	~~[[Category: Sv5-v]]~~	+
-	~~[[Category: Zinc finger~~]]	+

OCA at 13:05, 24 November 2021

2021-11-24T13:05:38Z

←Older revision		Revision as of 13:05, 24 November 2021
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	<StructureSection load='2b5l' size='340' side='right'caption='[[2b5l]], [[Resolution\|resolution]] 2.85Å' scene=''>		<StructureSection load='2b5l' size='340' side='right'caption='[[2b5l]], [[Resolution\|resolution]] 2.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2b5l]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/ ] and [~~http~~://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B5L OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2B5L FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2b5l]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/ ] and [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B5L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2B5L FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b5m\|2b5m]], [[2b5n\|2b5n]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2b5m\|2b5m]], [[2b5n\|2b5n]]</div></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=2b5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b5l OCA], [~~http~~://pdbe.org/2b5l PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2b5l RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2b5l PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2b5l 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=2b5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b5l OCA], [https://pdbe.org/2b5l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2b5l RCSB], [https://www.ebi.ac.uk/pdbsum/2b5l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2b5l ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/V_SV5 V_SV5]] Blocks host interferon signaling. Induces the ubiquitination and subsequent proteasome-mediated degradation of host STAT1. Acts as an adapter, linking host DDB1-Cullin 4 to STAT2/STAT1 complex. There is an absolute requirement of STAT2 in STAT1 degradation, as V binds specifically to STAT2. Might act as a chaperone keeping the viral nucleoprotein soluble. Interacts with host IFIH1/MDA5 to block its activity in the transduction pathway which leads to the activation of IFN-beta promoter, thus protecting the virus against cell antiviral state.<ref>PMID:15950997</ref>	+	[[https://www.uniprot.org/uniprot/V_SV5 V_SV5]] Blocks host interferon signaling. Induces the ubiquitination and subsequent proteasome-mediated degradation of host STAT1. Acts as an adapter, linking host DDB1-Cullin 4 to STAT2/STAT1 complex. There is an absolute requirement of STAT2 in STAT1 degradation, as V binds specifically to STAT2. Might act as a chaperone keeping the viral nucleoprotein soluble. Interacts with host IFIH1/MDA5 to block its activity in the transduction pathway which leads to the activation of IFN-beta promoter, thus protecting the virus against cell antiviral state.<ref>PMID:15950997</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 08:12, 19 February 2020

2020-02-19T08:12:48Z

←Older revision		Revision as of 08:12, 19 February 2020
Line 1:		Line 1:

	==Crystal Structure of DDB1 In Complex with Simian Virus 5 V Protein==		==Crystal Structure of DDB1 In Complex with Simian Virus 5 V Protein==
-	<StructureSection load='2b5l' size='340' side='right' caption='[[2b5l]], [[Resolution\|resolution]] 2.85Å' scene=''>	+	<StructureSection load='2b5l' size='340' side='right'caption='[[2b5l]], [[Resolution\|resolution]] 2.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2b5l]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/ ] and [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B5L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2B5L FirstGlance]. <br>		<table><tr><td colspan='2'>[[2b5l]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/ ] and [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B5L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2B5L FirstGlance]. <br>
Line 32:		Line 32:
	==See Also==		==See Also==
	*[[DNA damage-binding protein\|DNA damage-binding protein]]		*[[DNA damage-binding protein\|DNA damage-binding protein]]
-	*[[Nonstructural protein\|Nonstructural protein]]	+	*[[Nonstructural protein 3D structures\|Nonstructural protein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 38:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Chen, X]]		[[Category: Chen, X]]
	[[Category: Garbutt, K C]]		[[Category: Garbutt, K C]]

OCA at 06:41, 16 May 2018

2018-05-16T06:41:29Z

←Older revision		Revision as of 06:41, 16 May 2018
Line 1:		Line 1:
		+
	==Crystal Structure of DDB1 In Complex with Simian Virus 5 V Protein==		==Crystal Structure of DDB1 In Complex with Simian Virus 5 V Protein==
	<StructureSection load='2b5l' size='340' side='right' caption='[[2b5l]], [[Resolution\|resolution]] 2.85Å' scene=''>		<StructureSection load='2b5l' size='340' side='right' caption='[[2b5l]], [[Resolution\|resolution]] 2.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2b5l]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Human Human~~] and [http://en.wikipedia.org/wiki/~~Parainfluenza_virus_5 Parainfluenza virus 5~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B5L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2B5L FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2b5l]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/ ] and [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B5L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2B5L FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b5m\|2b5m]], [[2b5n\|2b5n]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b5m\|2b5m]], [[2b5n\|2b5n]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">P/V ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11207 Parainfluenza virus 5])</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=2b5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b5l OCA], [http://pdbe.org/2b5l PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2b5l RCSB], [http://www.ebi.ac.uk/pdbsum/2b5l PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2b5l ProSAT]</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=2b5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b5l OCA], [http://pdbe.org/2b5l PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2b5l RCSB], [http://www.ebi.ac.uk/pdbsum/2b5l PDBsum]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
Line 14:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/b5/2b5l_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/b5/2b5l_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2b5l ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 38:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
-	[[Category: Parainfluenza virus 5]]
	[[Category: Chen, X]]		[[Category: Chen, X]]
	[[Category: Garbutt, K C]]		[[Category: Garbutt, K C]]

OCA at 01:44, 12 September 2015

2015-09-12T01:44:43Z

←Older revision		Revision as of 01:44, 12 September 2015
Line 2:		Line 2:
	<StructureSection load='2b5l' size='340' side='right' caption='[[2b5l]], [[Resolution\|resolution]] 2.85Å' scene=''>		<StructureSection load='2b5l' size='340' side='right' caption='[[2b5l]], [[Resolution\|resolution]] 2.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2b5l]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Homo_sapiens Homo sapiens~~] and [http://en.wikipedia.org/wiki/Parainfluenza_virus_5 Parainfluenza virus 5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B5L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2B5L FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2b5l]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human] and [http://en.wikipedia.org/wiki/Parainfluenza_virus_5 Parainfluenza virus 5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B5L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2B5L FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b5m\|2b5m]], [[2b5n\|2b5n]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b5m\|2b5m]], [[2b5n\|2b5n]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">P/V ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11207 Parainfluenza virus 5])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">P/V ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11207 Parainfluenza virus 5])</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=2b5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b5l OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2b5l RCSB], [http://www.ebi.ac.uk/pdbsum/2b5l 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=2b5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b5l OCA], [http://pdbe.org/2b5l PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2b5l RCSB], [http://www.ebi.ac.uk/pdbsum/2b5l PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/V_SV5 V_SV5]] Blocks host interferon signaling. Induces the ubiquitination and subsequent proteasome-mediated degradation of host STAT1. Acts as an adapter, linking host DDB1-Cullin 4 to STAT2/STAT1 complex. There is an absolute requirement of STAT2 in STAT1 degradation, as V binds specifically to STAT2. Might act as a chaperone keeping the viral nucleoprotein soluble. Interacts with host IFIH1/MDA5 to block its activity in the transduction pathway which leads to the activation of IFN-beta promoter, thus protecting the virus against cell antiviral state.<ref>PMID:15950997</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 26:		Line 28:
	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 2b5l" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 37:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Parainfluenza virus 5]]		[[Category: Parainfluenza virus 5]]
	[[Category: Chen, X]]		[[Category: Chen, X]]

OCA at 09:33, 8 January 2015

2015-01-08T09:33:38Z

←Older revision		Revision as of 09:33, 8 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2b5l]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [http://en.wikipedia.org/wiki/Parainfluenza_virus_5 Parainfluenza virus 5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B5L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2B5L FirstGlance]. <br>		<table><tr><td colspan='2'>[[2b5l]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [http://en.wikipedia.org/wiki/Parainfluenza_virus_5 Parainfluenza virus 5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B5L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2B5L FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b5m\|2b5m]], [[2b5n\|2b5n]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b5m\|2b5m]], [[2b5n\|2b5n]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">P/V ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11207 Parainfluenza virus 5])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">P/V ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11207 Parainfluenza virus 5])</td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2b5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b5l OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2b5l RCSB], [http://www.ebi.ac.uk/pdbsum/2b5l 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=2b5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b5l OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2b5l RCSB], [http://www.ebi.ac.uk/pdbsum/2b5l PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 36:		Line 36:
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Parainfluenza virus 5]]		[[Category: Parainfluenza virus 5]]
-	[[Category: Chen, X.]]	+	[[Category: Chen, X]]
-	[[Category: Garbutt, K C.]]	+	[[Category: Garbutt, K C]]
-	[[Category: Li, T.]]	+	[[Category: Li, T]]
-	[[Category: Zheng, N.]]	+	[[Category: Zheng, N]]
-	[[Category: Zhou, P.]]	+	[[Category: Zhou, P]]
	[[Category: Beta propeller]]		[[Category: Beta propeller]]
	[[Category: Ddb1]]		[[Category: Ddb1]]

OCA at 05:50, 29 September 2014

2014-09-29T05:50:42Z

←Older revision		Revision as of 05:50, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2b5l.~~png~~\|~~left~~\|200px]]	+	==Crystal Structure of DDB1 In Complex with Simian Virus 5 V Protein==
		+	<StructureSection load='2b5l' size='340' side='right' caption='[[2b5l]], [[Resolution\|resolution]] 2.85Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2b5l]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [http://en.wikipedia.org/wiki/Parainfluenza_virus_5 Parainfluenza virus 5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B5L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2B5L FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b5m\|2b5m]], [[2b5n\|2b5n]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">P/V ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11207 Parainfluenza virus 5])</td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2b5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b5l OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2b5l RCSB], [http://www.ebi.ac.uk/pdbsum/2b5l PDBsum]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/b5/2b5l_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The DDB1-Cul4A ubiquitin ligase complex promotes protein ubiquitination in diverse cellular functions and is reprogrammed by the V proteins of paramyxoviruses to degrade STATs and block interferon signaling. Here we report the crystal structures of DDB1 alone and in complex with the simian virus 5 V protein. The DDB1 structure reveals an intertwined three-propeller cluster, which contains two tightly coupled beta propellers with a large pocket in between and a third beta propeller flexibly attached on the side. The rigid double-propeller fold of DDB1 is targeted by the viral V protein, which inserts an entire helix into the double-propeller pocket, whereas the third propeller domain docks DDB1 to the N terminus of the Cul4A scaffold. Together, these results not only provide structural insights into how the virus hijacks the DDB1-Cul4A ubiquitin ligase but also establish a structural framework for understanding the multiple functions of DDB1 in the uniquely assembled cullin-RING E3 machinery.

-	~~{{STRUCTURE_2b5l\| PDB=2b5l \| SCENE= }}~~	+	Structure of DDB1 in complex with a paramyxovirus V protein: viral hijack of a propeller cluster in ubiquitin ligase.,Li T, Chen X, Garbutt KC, Zhou P, Zheng N Cell. 2006 Jan 13;124(1):105-17. PMID:16413485<ref>PMID:16413485</ref>

-	~~===Crystal Structure~~ of ~~DDB1 In Complex with Simian Virus 5 V Protein===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_16413485}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2b5l]] is a 4 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Homo_sapiens Homo sapiens] and [http://en~~.~~wikipedia.org~~/~~wiki/Parainfluenza_virus_5 Parainfluenza virus 5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B5L OCA].~~	+

	==See Also==		==See Also==
		+	*[[DNA damage-binding protein\|DNA damage-binding protein]]
	*[[Nonstructural protein\|Nonstructural protein]]		*[[Nonstructural protein\|Nonstructural protein]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:016413485<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Parainfluenza virus 5]]		[[Category: Parainfluenza virus 5]]

OCA at 22:14, 20 October 2012

2012-10-20T22:14:40Z

←Older revision		Revision as of 22:14, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2b5l]] is a 4 chain structure ~~of [[Nonstructural protein]]~~ with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [http://en.wikipedia.org/wiki/Parainfluenza_virus_5 Parainfluenza virus 5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B5L OCA].	+	[[2b5l]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [http://en.wikipedia.org/wiki/Parainfluenza_virus_5 Parainfluenza virus 5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B5L OCA].

	==See Also==		==See Also==

OCA: Protected "2b5l" [edit=sysop:move=sysop]

2012-07-27T15:40:51Z

Protected "2b5l" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:40, 27 July 2012

OCA at 15:40, 27 July 2012

2012-07-27T15:40:50Z

←Older revision		Revision as of 15:40, 27 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2b5l.png\|left\|200px]]		[[Image:2b5l.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2b5l", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_2b5l\| PDB=2b5l \| SCENE= }}		{{STRUCTURE_2b5l\| PDB=2b5l \| SCENE= }}

	===Crystal Structure of DDB1 In Complex with Simian Virus 5 V Protein===		===Crystal Structure of DDB1 In Complex with Simian Virus 5 V Protein===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_16413485}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 16413485 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_16413485}}		{{ABSTRACT_PUBMED_16413485}}

	==About this Structure==		==About this Structure==
-	~~2B5L~~ is a 4 ~~chains~~ structure of ~~sequences~~ from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [http://en.wikipedia.org/wiki/~~Simian_virus_5 Simian~~ virus 5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B5L OCA].	+	[[2b5l]] is a 4 chain structure of [[Nonstructural protein]] with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [http://en.wikipedia.org/wiki/Parainfluenza_virus_5 Parainfluenza virus 5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B5L OCA].
		+
		+	==See Also==
		+	*[[Nonstructural protein\|Nonstructural protein]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~16413485~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:016413485</ref><references group="xtra"/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: ~~Simian~~ virus 5]]	+	[[Category: Parainfluenza virus 5]]
	[[Category: Chen, X.]]		[[Category: Chen, X.]]
	[[Category: Garbutt, K C.]]		[[Category: Garbutt, K C.]]
Line 34:		Line 25:
	[[Category: Ddb1]]		[[Category: Ddb1]]
	[[Category: Propeller cluster]]		[[Category: Propeller cluster]]
		+	[[Category: Protein binding-viral protein complex]]
	[[Category: Sv5-v]]		[[Category: Sv5-v]]
	[[Category: Zinc finger]]		[[Category: Zinc finger]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 09:25:22 2009''