5k83 - Revision history

OCA at 09:54, 27 September 2023

2023-09-27T09:54:07Z

←Older revision		Revision as of 09:54, 27 September 2023
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	<StructureSection load='5k83' size='340' side='right'caption='[[5k83]], [[Resolution\|resolution]] 2.39Å' scene=''>		<StructureSection load='5k83' size='340' side='right'caption='[[5k83]], [[Resolution\|resolution]] 2.39Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5k83]] is a 9 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Macmu Macmu~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5K83 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5K83 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5k83]] is a 9 chain structure with sequence from [https://en.wikipedia.org/wiki/Macaca_mulatta Macaca mulatta]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5K83 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5K83 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]] 2.39Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style~~=~~'overflow: auto; max-height: 3em;'~~>~~[[5k81\|5k81]], [[5k82\|5k82]]~~<~~/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~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">APOBEC3G ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9544 MACMU])~~</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=5k83 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5k83 OCA], [https://pdbe.org/5k83 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5k83 RCSB], [https://www.ebi.ac.uk/pdbsum/5k83 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5k83 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=5k83 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5k83 OCA], [https://pdbe.org/5k83 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5k83 RCSB], [https://www.ebi.ac.uk/pdbsum/5k83 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5k83 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/M1GSK9_MACMU M1GSK9_MACMU]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Macmu~~]]	+	[[Category: Macaca mulatta]]
-	[[Category: Chen~~, X S~~]]	+	[[Category: Chen XS]]
-	[[Category: Li, S X]]	+	[[Category: Li S-X]]
-	[[Category: Xiao, X]]	+	[[Category: Xiao X]]
-	[[Category: Yang, H]]	+	[[Category: Yang H]]
-	~~[[Category: Apobec]]~~	+
-	~~[[Category: Apobec3g]]~~	+
-	~~[[Category: Hiv]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Vif~~]]	+

OCA at 10:11, 13 April 2022

2022-04-13T10:11:50Z

←Older revision		Revision as of 10:11, 13 April 2022
Line 3:		Line 3:
	<StructureSection load='5k83' size='340' side='right'caption='[[5k83]], [[Resolution\|resolution]] 2.39Å' scene=''>		<StructureSection load='5k83' size='340' side='right'caption='[[5k83]], [[Resolution\|resolution]] 2.39Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5k83]] is a 9 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5K83 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5K83 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5k83]] is a 9 chain structure with sequence from [https://en.wikipedia.org/wiki/Macmu Macmu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5K83 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5K83 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='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">[[5k81\|5k81]], [[5k82\|5k82]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[5k81\|5k81]], [[5k82\|5k82]]</div></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=5k83 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5k83 OCA], [~~http~~://pdbe.org/5k83 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5k83 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5k83 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5k83 ProSAT]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">APOBEC3G ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9544 MACMU])</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=5k83 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5k83 OCA], [https://pdbe.org/5k83 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5k83 RCSB], [https://www.ebi.ac.uk/pdbsum/5k83 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5k83 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 22:		Line 23:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
		+	[[Category: Macmu]]
	[[Category: Chen, X S]]		[[Category: Chen, X S]]
	[[Category: Li, S X]]		[[Category: Li, S X]]

OCA at 09:25, 1 July 2020

2020-07-01T09:25:56Z

←Older revision		Revision as of 09:25, 1 July 2020
Line 1:		Line 1:

	==Crystal Structure of a Primate APOBEC3G N-Domain, in Complex with ssDNA==		==Crystal Structure of a Primate APOBEC3G N-Domain, in Complex with ssDNA==
-	<StructureSection load='5k83' size='340' side='right' caption='[[5k83]], [[Resolution\|resolution]] 2.39Å' scene=''>	+	<StructureSection load='5k83' size='340' side='right'caption='[[5k83]], [[Resolution\|resolution]] 2.39Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5k83]] is a 9 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5K83 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5K83 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5k83]] is a 9 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5K83 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5K83 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">[[5k81\|5k81]], [[5k82\|5k82]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5k81\|5k81]], [[5k82\|5k82]]</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=5k83 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5k83 OCA], [http://pdbe.org/5k83 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5k83 RCSB], [http://www.ebi.ac.uk/pdbsum/5k83 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5k83 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=5k83 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5k83 OCA], [http://pdbe.org/5k83 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5k83 RCSB], [http://www.ebi.ac.uk/pdbsum/5k83 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5k83 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Chen, X S]]		[[Category: Chen, X S]]
	[[Category: Li, S X]]		[[Category: Li, S X]]

OCA at 16:03, 10 August 2016

2016-08-10T16:03:26Z

←Older revision		Revision as of 16:03, 10 August 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5k83 is ~~ON HOLD~~	+	==Crystal Structure of a Primate APOBEC3G N-Domain, in Complex with ssDNA==
		+	<StructureSection load='5k83' size='340' side='right' caption='[[5k83]], [[Resolution\|resolution]] 2.39Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5k83]] is a 9 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5K83 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5K83 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>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5k81\|5k81]], [[5k82\|5k82]]</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=5k83 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5k83 OCA], [http://pdbe.org/5k83 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5k83 RCSB], [http://www.ebi.ac.uk/pdbsum/5k83 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5k83 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	APOBEC3G (A3G) is a potent restriction factor of HIV-1. The N-terminal domain of A3G (A3G-CD1) is responsible for oligomerization and nucleic acid binding, both of which are essential for anti-HIV activity. As a countermeasure, HIV-1 viral infectivity factor (Vif) binds A3G-CD1 to mediate A3G degradation. The structural basis for the functions of A3G-CD1 remains elusive. Here, we report the crystal structures of a primate A3G-CD1 (rA3G-CD1) alone and in complex with single-stranded DNA (ssDNA). rA3G-CD1 shares a conserved core structure with the previously determined catalytic APOBECs, but displays unique features for surface charge, dimerization and nucleic acid binding. Its co-crystal structure with ssDNA reveals how the conformations of loops and residues surrounding the Zn-coordinated centre (Zn-centre) change upon DNA binding. The dimerization interface of rA3G-CD1 is important for oligomerization, nucleic acid binding and Vif-mediated degradation. These findings elucidate the molecular basis of antiviral mechanism and HIV-Vif targeting of A3G.

-	~~Authors:~~ Xiao, X., Li~~, S.-X.~~, Yang, H., Chen~~, X~~.S.	+	Crystal structures of APOBEC3G N-domain alone and its complex with DNA.,Xiao X, Li SX, Yang H, Chen XS Nat Commun. 2016 Aug 2;7:12193. doi: 10.1038/ncomms12193. PMID:27480941<ref>PMID:27480941</ref>

-	~~Description: Crystal Structure of a Primate APOBEC3G N-Domain~~, ~~in Complex with ssDNA~~	+	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 5k83" style="background-color:#fffaf0;"></div>
-	[[Category: Li, S.-X]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Chen, X S]]
		+	[[Category: Li, S X]]
	[[Category: Xiao, X]]		[[Category: Xiao, X]]
-	[[Category: ~~Chen~~, ~~X.S~~]]	+	[[Category: Yang, H]]
		+	[[Category: Apobec]]
		+	[[Category: Apobec3g]]
		+	[[Category: Hiv]]
		+	[[Category: Hydrolase]]
		+	[[Category: Vif]]

OCA: Protected "5k83" [edit=sysop:move=sysop]

2016-06-20T13:32:13Z

Protected "5k83" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:32, 20 June 2016

OCA: New page: '''Unreleased structure''' The entry 5k83 is ON HOLD Authors: Xiao, X., Li, S.-X., Yang, H., Chen, X.S. Description: Crystal Structure of a Primate APOBEC3G N-Domain, in Complex with s...

2016-06-20T13:32:11Z

New page: '''Unreleased structure''' The entry 5k83 is ON HOLD Authors: Xiao, X., Li, S.-X., Yang, H., Chen, X.S. Description: Crystal Structure of a Primate APOBEC3G N-Domain, in Complex with s...

New page

'''Unreleased structure'''

The entry 5k83 is ON HOLD

Authors: Xiao, X., Li, S.-X., Yang, H., Chen, X.S.

Description: Crystal Structure of a Primate APOBEC3G N-Domain, in Complex with ssDNA
[[Category: Unreleased Structures]]
[[Category: Yang, H]]
[[Category: Li, S.-X]]
[[Category: Xiao, X]]
[[Category: Chen, X.S]]