6puy - Revision history

OCA at 09:27, 20 March 2024

OCA — Wed, 20 Mar 2024 09:27:27 GMT

←Older revision		Revision as of 09:27, 20 March 2024
Line 3:		Line 3:
	<SX load='6puy' size='340' side='right' viewer='molstar' caption='[[6puy]], [[Resolution\|resolution]] 2.80Å' scene=''>		<SX load='6puy' size='340' side='right' viewer='molstar' caption='[[6puy]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6puy]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~9hiv1 9hiv1~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PUY OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6PUY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6puy]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Human_immunodeficiency_virus_1 Human immunodeficiency virus 1] and [https://en.wikipedia.org/wiki/Saccharolobus_solfataricus_P2 Saccharolobus solfataricus P2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PUY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6PUY FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=OZ1:4-amino-N-[(2,4-difluorophenyl)methyl]-1-hydroxy-6-(6-hydroxyhexyl)-2-oxo-1,2-dihydro-1,8-naphthyridine-3-carboxamide'>OZ1</scene>, <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">Electron Microscopy, [[Resolution\|Resolution]] 2.8Å</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">sso7d, sso7d-1, SSO10610 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11676 9HIV1])</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=OZ1:4-amino-N-[(2,4-difluorophenyl)methyl]-1-hydroxy-6-(6-hydroxyhexyl)-2-oxo-1,2-dihydro-1,8-naphthyridine-3-carboxamide'>OZ1</scene>, <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'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=6puy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6puy OCA], [~~http~~://pdbe.org/6puy PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6puy RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6puy PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6puy 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=6puy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6puy OCA], [https://pdbe.org/6puy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6puy RCSB], [https://www.ebi.ac.uk/pdbsum/6puy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6puy ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/DN7D_SACS2 DN7D_SACS2]] Can constrain negative DNA supercoils. May be involved in maintaining the integrity of the genome at high temperature (By similarity). Stimulates the Holliday junction cleavage activity of Hjc (PubMed:11709558).[UniProtKB:P61990]<ref>PMID:11709558</ref>	+	[https://www.uniprot.org/uniprot/DN7D_SACS2 DN7D_SACS2] Can constrain negative DNA supercoils. May be involved in maintaining the integrity of the genome at high temperature (By similarity). Stimulates the Holliday junction cleavage activity of Hjc (PubMed:11709558).[UniProtKB:P61990]<ref>PMID:11709558</ref> [https://www.uniprot.org/uniprot/POL_HV1N5 POL_HV1N5] Gag-Pol polyprotein and Gag polyprotein may regulate their own translation, by the binding genomic RNA in the 5'-UTR. At low concentration, Gag-Pol and Gag would promote translation, whereas at high concentration, the polyproteins encapsidate genomic RNA and then shutt off translation (By similarity). Matrix protein p17 has two main functions: in infected cell, it targets Gag and Gag-pol polyproteins to the plasma membrane via a multipartite membrane-binding signal, that includes its myristoylated N-terminus. The second function is to play a role in nuclear localization of the viral genome at the very start of cell infection. Matrix protein is the part of the pre-integration complex. It binds in the cytoplasm the human BAF protein which prevent autointegration of the viral genome, and might be included in virions at the ration of zero to 3 BAF dimer per virion. The myristoylation signal and the NLS thus exert conflicting influences its subcellular localization. The key regulation of these motifs might be phosphorylation of a portion of MA molecules on the C-terminal tyrosine at the time of virus maturation, by virion-associated cellular tyrosine kinase. Implicated in the release from host cell mediated by Vpu (By similarity). Capsid protein p24 forms the conical core that encapsulates the genomic RNA-nucleocapsid complex in the virion. Most core are conical, with only 7% tubular. The core is constituted by capsid protein hexamer subunits. The core is disassembled soon after virion entry. Interaction with human PPIA/CYPA protects the virus from restriction by human TRIM5-alpha and from an unknown antiviral activity in human cells. This capsid restriction by TRIM5 is one of the factors which restricts HIV-1 to the human species (By similarity). Nucleocapsid protein p7 encapsulates and protects viral dimeric unspliced (genomic) RNA. Binds these RNAs through its zinc fingers. Facilitates rearangement of nucleic acid secondary structure during retrotranscription of genomic RNA. This capability is referred to as nucleic acid chaperone activity (By similarity). The aspartyl protease mediates proteolytic cleavages of Gag and Gag-Pol polyproteins during or shortly after the release of the virion from the plasma membrane. Cleavages take place as an ordered, step-wise cascade to yield mature proteins. This process is called maturation. Displays maximal activity during the budding process just prior to particle release from the cell. Also cleaves Nef and Vif, probably concomitantly with viral structural proteins on maturation of virus particles (By similarity). Reverse transcriptase/ribonuclease H (RT) is a multifunctional enzyme that converts the viral RNA genome into dsDNA in the cytoplasm, shortly after virus entry into the cell. This enzyme displays a DNA polymerase activity that can copy either DNA or RNA templates, and a ribonuclease H (RNase H) activity that cleaves the RNA strand of RNA-DNA heteroduplexes in a partially processive 3' to 5' endonucleasic mode. Conversion of viral genomic RNA into dsDNA requires many steps. A tRNA(3)-Lys binds to the primer-binding site (PBS) situated at the 5'-end of the viral RNA. RT uses the 3' end of the tRNA primer to perform a short round of RNA-dependent minus-strand DNA synthesis. The reading proceeds through the U5 region and ends after the repeated (R) region which is present at both ends of viral RNA. The portion of the RNA-DNA heteroduplex is digested by the RNase H, resulting in a ssDNA product attached to the tRNA primer. This ssDNA/tRNA hybridizes with the identical R region situated at the 3' end of viral RNA. This template exchange, known as minus-strand DNA strong stop transfer, can be either intra- or intermolecular. RT uses the 3' end of this newly synthesized short ssDNA to perform the RNA-dependent minus-strand DNA synthesis of the whole template. RNase H digests the RNA template except for two polypurine tracts (PPTs) situated at the 5'-end and near the center of the genome. It is not clear if both polymerase and RNase H activities are simultaneous. RNase H probably can proceed both in a polymerase-dependent (RNA cut into small fragments by the same RT performing DNA synthesis) and a polymerase-independent mode (cleavage of remaining RNA fragments by free RTs). Secondly, RT performs DNA-directed plus-strand DNA synthesis using the PPTs that have not been removed by RNase H as primers. PPTs and tRNA primers are then removed by RNase H. The 3' and 5' ssDNA PBS regions hybridize to form a circular dsDNA intermediate. Strand displacement synthesis by RT to the PBS and PPT ends produces a blunt ended, linear dsDNA copy of the viral genome that includes long terminal repeats (LTRs) at both ends (By similarity). Integrase catalyzes viral DNA integration into the host chromosome, by performing a series of DNA cutting and joining reactions. This enzyme activity takes place after virion entry into a cell and reverse transcription of the RNA genome in dsDNA. The first step in the integration process is 3' processing. This step requires a complex comprising the viral genome, matrix protein, Vpr and integrase. This complex is called the pre-integration complex (PIC). The integrase protein removes 2 nucleotides from each 3' end of the viral DNA, leaving recessed CA OH's at the 3' ends. In the second step, the PIC enters cell nucleus. This process is mediated through integrase and Vpr proteins, and allows the virus to infect a non dividing cell. This ability to enter the nucleus is specific of lentiviruses, other retroviruses cannot and rely on cell division to access cell chromosomes. In the third step, termed strand transfer, the integrase protein joins the previously processed 3' ends to the 5' ends of strands of target cellular DNA at the site of integration. The 5'-ends are produced by integrase-catalyzed staggered cuts, 5 bp apart. A Y-shaped, gapped, recombination intermediate results, with the 5'-ends of the viral DNA strands and the 3' ends of target DNA strands remaining unjoined, flanking a gap of 5 bp. The last step is viral DNA integration into host chromosome. This involves host DNA repair synthesis in which the 5 bp gaps between the unjoined strands are filled in and then ligated. Since this process occurs at both cuts flanking the HIV genome, a 5 bp duplication of host DNA is produced at the ends of HIV-1 integration. Alternatively, Integrase may catalyze the excision of viral DNA just after strand transfer, this is termed disintegration (By similarity).
-	~~<div style="background~~-~~color~~:~~#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	The ~~HIV intasome~~ is a ~~large nucleoprotein assembly that mediates~~ the ~~integration~~ of ~~a DNA copy~~ of the viral genome ~~into~~ host ~~chromatin~~. ~~Intasomes~~ are ~~targeted~~ by the ~~latest generation~~ of ~~antiretrovirals, integrase~~ (IN) ~~strand transfer inhibitors~~ (~~INSTIs~~). ~~Challenges associated with lentiviral intasome biochemistry have hindered high~~-~~resolution structural studies~~ of ~~how INSTIs bind~~ to ~~their native drug target~~. ~~Here~~, ~~we present high~~-~~resolution cryo-electron microscopy~~ (~~cryo~~-EM) ~~structures~~ of ~~HIV intasomes bound~~ to the ~~latest generation INSTIs~~. ~~These structures highlight how small changes~~ in the ~~IN active site~~ can ~~have significant implications~~ for ~~drug binding~~ and ~~design~~ and ~~provide mechanistic insights~~ into ~~why~~ a ~~leading INSTI retains efficacy against a broad spectrum~~ of ~~drug resistant variants~~. ~~The data have implications for expanding effective treatments available for HIV~~-~~infected individuals.~~	+
-		+
-	~~Structural basis for~~ strand ~~transfer inhibitor binding~~ to ~~HIV intasomes~~.,~~Passos DO~~, ~~Li M~~, ~~Jozwik IK~~, ~~Zhao XZ, Santos~~-~~Martins D~~, ~~Yang R~~, ~~Smith SJ~~, ~~Jeon Y~~, ~~Forli S~~, ~~Hughes SH~~, ~~Burke TR Jr~~, ~~Craigie R~~, ~~Lyumkis D Science~~. ~~2020 Jan 30~~. ~~pii: science.aay8015. doi: 10~~.~~1126/science.aay8015. PMID:32001521<ref>PMID:32001521</ref>~~	+
-		+
-	~~From MEDLINE®/PubMed®~~, a ~~database~~ of the U.~~S. National Library~~ of ~~Medicine~~.~~<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 6puy" style="background-color:#fffaf0;"></div>~~	+
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</SX>		</SX>
		+	[[Category: Human immunodeficiency virus 1]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Jozwik, I K~~]]	+	[[Category: Saccharolobus solfataricus P2]]
-	[[Category: ~~Lyumkis, D~~]]	+	[[Category: Jozwik IK]]
-	[[Category: ~~Passos,~~ D]]	+	[[Category: Lyumkis D]]
-	[[Category: ~~Intasome]]~~	+	[[Category: Passos D]]
-	~~[[Category: Integrase]]~~	+
-	~~[[Category: Transposition]]~~	+
-	~~[[Category: Viral protein]]~~	+
-	~~[[Category: Viral protein-dna complex~~]]	+

OCA at 04:37, 11 April 2020

OCA — Sat, 11 Apr 2020 04:37:54 GMT

←Older revision		Revision as of 04:37, 11 April 2020
Line 3:		Line 3:
	<SX load='6puy' size='340' side='right' viewer='molstar' caption='[[6puy]], [[Resolution\|resolution]] 2.80Å' scene=''>		<SX load='6puy' size='340' side='right' viewer='molstar' caption='[[6puy]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6puy]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/9hiv1 9hiv1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PUY OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6PUY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6puy]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/9hiv1 9hiv1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PUY OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6PUY FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=OZ1:4-amino-N-[(2,4-difluorophenyl)methyl]-1-hydroxy-6-(6-hydroxyhexyl)-2-oxo-1,2-dihydro-1,8-naphthyridine-3-carboxamide'>OZ1</scene>, <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=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=OZ1:4-amino-N-[(2,4-difluorophenyl)methyl]-1-hydroxy-6-(6-hydroxyhexyl)-2-oxo-1,2-dihydro-1,8-naphthyridine-3-carboxamide'>OZ1</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">sso7d, sso7d-1, SSO10610 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11676 9HIV1])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">sso7d, sso7d-1, SSO10610 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11676 9HIV1])</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=6puy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6puy OCA], [http://pdbe.org/6puy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6puy RCSB], [http://www.ebi.ac.uk/pdbsum/6puy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6puy 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=6puy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6puy OCA], [http://pdbe.org/6puy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6puy RCSB], [http://www.ebi.ac.uk/pdbsum/6puy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6puy ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 23:27, 6 March 2020

OCA — Fri, 06 Mar 2020 23:27:20 GMT

←Older revision		Revision as of 23:27, 6 March 2020
Line 1:		Line 1:

	==Structure of HIV cleaved synaptic complex (CSC) intasome bound with magnesium and INSTI XZ426 (compound 4d)==		==Structure of HIV cleaved synaptic complex (CSC) intasome bound with magnesium and INSTI XZ426 (compound 4d)==
-	<~~StructureSection~~ load='6puy' size='340' side='right'caption='[[6puy]], [[Resolution\|resolution]] 2.80Å' scene=''>	+	<SX load='6puy' size='340' side='right' viewer='molstar' caption='[[6puy]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6puy]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/9hiv1 9hiv1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PUY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6PUY FirstGlance]. <br>		<table><tr><td colspan='2'>[[6puy]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/9hiv1 9hiv1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PUY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6PUY FirstGlance]. <br>
Line 22:		Line 22:
	<references/>		<references/>
	__TOC__		__TOC__
-	</~~StructureSection~~>	+	</SX>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Jozwik, I K]]		[[Category: Jozwik, I K]]

OCA at 10:26, 26 February 2020

OCA — Wed, 26 Feb 2020 10:26:49 GMT

←Older revision		Revision as of 10:26, 26 February 2020
Line 3:		Line 3:
	<StructureSection load='6puy' size='340' side='right'caption='[[6puy]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='6puy' size='340' side='right'caption='[[6puy]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6puy]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PUY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6PUY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6puy]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/9hiv1 9hiv1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PUY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6PUY FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=OZ1:4-amino-N-[(2,4-difluorophenyl)methyl]-1-hydroxy-6-(6-hydroxyhexyl)-2-oxo-1,2-dihydro-1,8-naphthyridine-3-carboxamide'>OZ1</scene>, <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=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=OZ1:4-amino-N-[(2,4-difluorophenyl)methyl]-1-hydroxy-6-(6-hydroxyhexyl)-2-oxo-1,2-dihydro-1,8-naphthyridine-3-carboxamide'>OZ1</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">sso7d, sso7d-1, SSO10610 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11676 9HIV1])</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=6puy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6puy OCA], [http://pdbe.org/6puy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6puy RCSB], [http://www.ebi.ac.uk/pdbsum/6puy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6puy 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=6puy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6puy OCA], [http://pdbe.org/6puy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6puy RCSB], [http://www.ebi.ac.uk/pdbsum/6puy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6puy ProSAT]</span></td></tr>
	</table>		</table>

OCA at 04:20, 13 February 2020

OCA — Thu, 13 Feb 2020 04:20:36 GMT

←Older revision		Revision as of 04:20, 13 February 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6puy is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Structure of HIV cleaved synaptic complex (CSC) intasome bound with magnesium and INSTI XZ426 (compound 4d)==
		+	<StructureSection load='6puy' size='340' side='right'caption='[[6puy]], [[Resolution\|resolution]] 2.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6puy]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PUY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6PUY FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=OZ1:4-amino-N-[(2,4-difluorophenyl)methyl]-1-hydroxy-6-(6-hydroxyhexyl)-2-oxo-1,2-dihydro-1,8-naphthyridine-3-carboxamide'>OZ1</scene>, <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'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6puy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6puy OCA], [http://pdbe.org/6puy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6puy RCSB], [http://www.ebi.ac.uk/pdbsum/6puy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6puy ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/DN7D_SACS2 DN7D_SACS2]] Can constrain negative DNA supercoils. May be involved in maintaining the integrity of the genome at high temperature (By similarity). Stimulates the Holliday junction cleavage activity of Hjc (PubMed:11709558).[UniProtKB:P61990]<ref>PMID:11709558</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The HIV intasome is a large nucleoprotein assembly that mediates the integration of a DNA copy of the viral genome into host chromatin. Intasomes are targeted by the latest generation of antiretrovirals, integrase (IN) strand transfer inhibitors (INSTIs). Challenges associated with lentiviral intasome biochemistry have hindered high-resolution structural studies of how INSTIs bind to their native drug target. Here, we present high-resolution cryo-electron microscopy (cryo-EM) structures of HIV intasomes bound to the latest generation INSTIs. These structures highlight how small changes in the IN active site can have significant implications for drug binding and design and provide mechanistic insights into why a leading INSTI retains efficacy against a broad spectrum of drug resistant variants. The data have implications for expanding effective treatments available for HIV-infected individuals.

-	~~Authors~~:	+	Structural basis for strand transfer inhibitor binding to HIV intasomes.,Passos DO, Li M, Jozwik IK, Zhao XZ, Santos-Martins D, Yang R, Smith SJ, Jeon Y, Forli S, Hughes SH, Burke TR Jr, Craigie R, Lyumkis D Science. 2020 Jan 30. pii: science.aay8015. doi: 10.1126/science.aay8015. PMID:32001521<ref>PMID:32001521</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 6puy" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Jozwik, I K]]
		+	[[Category: Lyumkis, D]]
		+	[[Category: Passos, D]]
		+	[[Category: Intasome]]
		+	[[Category: Integrase]]
		+	[[Category: Transposition]]
		+	[[Category: Viral protein]]
		+	[[Category: Viral protein-dna complex]]

OCA at 06:08, 5 February 2020

OCA — Wed, 05 Feb 2020 06:08:56 GMT

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OCA at 13:14, 29 January 2020

OCA — Wed, 29 Jan 2020 13:14:53 GMT

←Older revision		Revision as of 13:14, 29 January 2020
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-	The entry 6puy is ON HOLD ~~until sometime in the future~~	+	The entry 6puy is ON HOLD

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OCA at 04:45, 31 July 2019

OCA — Wed, 31 Jul 2019 04:45:07 GMT

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-	The entry 6puy is ON HOLD	+	The entry 6puy is ON HOLD until sometime in the future

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OCA: Protected "6puy" [edit=sysop:move=sysop]

OCA — Wed, 24 Jul 2019 04:37:37 GMT

Protected "6puy" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:37, 24 July 2019

OCA: New page: '''Unreleased structure''' The entry 6puy is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 24 Jul 2019 04:37:36 GMT

New page: '''Unreleased structure''' The entry 6puy is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6puy is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]