2z2t - Revision history

OCA at 13:20, 1 November 2023

2023-11-01T13:20:15Z

←Older revision		Revision as of 13:20, 1 November 2023
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	<StructureSection load='2z2t' size='340' side='right'caption='[[2z2t]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='2z2t' size='340' side='right'caption='[[2z2t]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2z2t]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z2T OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2Z2T FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2z2t]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Human_immunodeficiency_virus_type_1_lw12.3_isolate Human immunodeficiency virus type 1 lw12.3 isolate]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z2T OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2Z2T FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>~~, ~~<scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 2.1Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene>, <scene name='pdbligand=NLE:NORLEUCINE'>NLE</scene></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene>, <scene name='pdbligand=NLE:NORLEUCINE'>NLE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=2z2t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z2t OCA], [~~http~~://pdbe.org/2z2t PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2z2t RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2z2t PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2z2t 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=2z2t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z2t OCA], [https://pdbe.org/2z2t PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2z2t RCSB], [https://www.ebi.ac.uk/pdbsum/2z2t PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2z2t ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/ENV_HV1LW ENV_HV1LW] The surface protein gp120 (SU) attaches the virus to the host lymphoid cell by binding to the primary receptor CD4. This interaction induces a structural rearrangement creating a high affinity binding site for a chemokine coreceptor like CXCR4 and/or CCR5. This peculiar 2 stage receptor-interaction strategy allows gp120 to maintain the highly conserved coreceptor-binding site in a cryptic conformation, protected from neutralizing antibodies. Since CD4 also displays a binding site for the disulfide-isomerase P4HB/PDI, a P4HB/PDI-CD4-CXCR4-gp120 complex may form. In that complex, P4HB/PDI could reach and reduce gp120 disulfide bonds, causing major conformational changes in gp120. TXN, another PDI family member could also be involved in disulfide rearrangements in Env during fusion. These changes are transmitted to the transmembrane protein gp41 and are thought to activate its fusogenic potential by unmasking its fusion peptide. Surface protein gp120 (SU) may target the virus to gut-associated lymphoid tissue (GALT) by binding host ITGA4/ITGB7 (alpha-4/beta-7 integrins), a complex that mediates T-cell migration to the GALT. Interaction between gp120 and ITGA4/ITGB7 would allow the virus to enter GALT early in the infection, infecting and killing most of GALT's resting CD4+ T-cells. This T-cell depletion is believed to be the major insult to the host immune system leading to AIDS (By similarity). The surface protein gp120 is a ligand for CD209/DC-SIGN and CLEC4M/DC-SIGNR, which are respectively found on dendritic cells (DCs), and on endothelial cells of liver sinusoids and lymph node sinuses. These interactions allow capture of viral particles at mucosal surfaces by these cells and subsequent transmission to permissive cells. DCs are professional antigen presenting cells, critical for host immunity by inducing specific immune responses against a broad variety of pathogens. They act as sentinels in various tissues where they take up antigen, process it, and present it to T-cells following migration to lymphoid organs. HIV subverts the migration properties of dendritic cells to gain access to CD4+ T-cells in lymph nodes. Virus transmission to permissive T-cells occurs either in trans (without DCs infection, through viral capture and transmission), or in cis (following DCs productive infection, through the usual CD4-gp120 interaction), thereby inducing a robust infection. In trans infection, bound virions remain infectious over days and it is proposed that they are not degraded, but protected in non-lysosomal acidic organelles within the DCs close to the cell membrane thus contributing to the viral infectious potential during DCs' migration from the periphery to the lymphoid tissues. On arrival at lymphoid tissues, intact virions recycle back to DCs' cell surface allowing virus transmission to CD4+ T-cells. Virion capture also seems to lead to MHC-II-restricted viral antigen presentation, and probably to the activation of HIV-specific CD4+ cells (By similarity). The transmembrane protein gp41 (TM) acts as a class I viral fusion protein. Under the current model, the protein has at least 3 conformational states: pre-fusion native state, pre-hairpin intermediate state, and post-fusion hairpin state. During fusion of viral and target intracellular membranes, the coiled coil regions (heptad repeats) assume a trimer-of-hairpins structure, positioning the fusion peptide in close proximity to the C-terminal region of the ectodomain. The formation of this structure appears to drive apposition and subsequent fusion of viral and target cell membranes. Complete fusion occurs in host cell endosomes and is dynamin-dependent, however some lipid transfer might occur at the plasma membrane. The virus undergoes clathrin-dependent internalization long before endosomal fusion, thus minimizing the surface exposure of conserved viral epitopes during fusion and reducing the efficacy of inhibitors targeting these epitopes. Membranes fusion leads to delivery of the nucleocapsid into the cytoplasm (By similarity). The envelope glyprotein gp160 precursor down-modulates cell surface CD4 antigen by interacting with it in the endoplasmic reticulum and blocking its transport to the cell surface (By similarity). The gp120-gp41 heterodimer seems to contribute to T-cell depletion during HIV-1 infection. The envelope glycoproteins expressed on the surface of infected cells induce apoptosis through an interaction with uninfected cells expressing the receptor (CD4) and the coreceptors CXCR4 or CCR5. This type of bystander killing may be obtained by at least three distinct mechanisms. First, the interaction between the 2 cells can induce cellular fusion followed by nuclear fusion within the syncytium. Syncytia are condemned to die from apoptosis. Second, the 2 interacting cells may not fuse entirely and simply exchange plasma membrane lipids, after a sort of hemifusion process, followed by rapid death. Third, it is possible that virus-infected cells, on the point of undergoing apoptosis, fuse with CD4-expressing cells, in which case apoptosis is rapidly transmitted from one cell to the other and thus occurs in a sort of contagious fashion (By similarity). The gp120-gp41 heterodimer allows rapid transcytosis of the virus through CD4 negative cells such as simple epithelial monolayers of the intestinal, rectal and endocervical epithelial barriers. Both gp120 and gp41 specifically recognize glycosphingolipids galactosyl-ceramide (GalCer) or 3' sulfo-galactosyl-ceramide (GalS) present in the lipid rafts structures of epithelial cells. Binding to these alternative receptors allows the rapid transcytosis of the virus through the epithelial cells. This transcytotic vesicle-mediated transport of virions from the apical side to the basolateral side of the epithelial cells does not involve infection of the cells themselves (By similarity).
	== 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 immunodeficiency virus type 1 lw12 3 isolate]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Kobayashi, Y]]	+	[[Category: Kobayashi Y]]
-	[[Category: Nakamura, S]]	+	[[Category: Nakamura S]]
-	[[Category: Ohkubo, T]]	+	[[Category: Ohkubo T]]
-	~~[[Category: Coiled-coil]]~~	+
-	~~[[Category: Viral protein-inhibitor complex~~]]	+

OCA at 11:56, 29 July 2020

2020-07-29T11:56:43Z

←Older revision		Revision as of 11:56, 29 July 2020
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	==Crystal structure of the complex between gp41 fragment N36 and fusion inhibitor SC34EK==		==Crystal structure of the complex between gp41 fragment N36 and fusion inhibitor SC34EK==
-	<StructureSection load='2z2t' size='340' side='right' caption='[[2z2t]], [[Resolution\|resolution]] 2.10Å' scene=''>	+	<StructureSection load='2z2t' size='340' side='right'caption='[[2z2t]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2z2t]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z2T OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2Z2T FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2z2t]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z2T OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2Z2T FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene>, <scene name='pdbligand=NLE:NORLEUCINE'>NLE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene>, <scene name='pdbligand=NLE:NORLEUCINE'>NLE</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=2z2t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z2t OCA], [http://pdbe.org/2z2t PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2z2t RCSB], [http://www.ebi.ac.uk/pdbsum/2z2t PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2z2t 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=2z2t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z2t OCA], [http://pdbe.org/2z2t PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2z2t RCSB], [http://www.ebi.ac.uk/pdbsum/2z2t PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2z2t ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 20:		Line 20:

	==See Also==		==See Also==
-	*[[Gp41\|Gp41]]	+	*[[Gp41 3D Structures\|Gp41 3D Structures]]
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Kobayashi, Y]]		[[Category: Kobayashi, Y]]
	[[Category: Nakamura, S]]		[[Category: Nakamura, S]]

OCA at 09:39, 17 October 2018

2018-10-17T09:39:18Z

←Older revision		Revision as of 09:39, 17 October 2018
Line 1:		Line 1:
		+
	==Crystal structure of the complex between gp41 fragment N36 and fusion inhibitor SC34EK==		==Crystal structure of the complex between gp41 fragment N36 and fusion inhibitor SC34EK==
	<StructureSection load='2z2t' size='340' side='right' caption='[[2z2t]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='2z2t' size='340' side='right' caption='[[2z2t]], [[Resolution\|resolution]] 2.10Å' scene=''>
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	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene>, <scene name='pdbligand=NLE:NORLEUCINE'>NLE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene>, <scene name='pdbligand=NLE:NORLEUCINE'>NLE</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=2z2t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z2t OCA], [http://pdbe.org/2z2t PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2z2t RCSB], [http://www.ebi.ac.uk/pdbsum/2z2t 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=2z2t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z2t OCA], [http://pdbe.org/2z2t PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2z2t RCSB], [http://www.ebi.ac.uk/pdbsum/2z2t PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2z2t ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/z2/2z2t_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/z2/2z2t_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>

OCA at 23:56, 7 February 2016

2016-02-07T23:56:17Z

←Older revision		Revision as of 23:56, 7 February 2016
Line 5:		Line 5:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene>, <scene name='pdbligand=NLE:NORLEUCINE'>NLE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene>, <scene name='pdbligand=NLE:NORLEUCINE'>NLE</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=2z2t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z2t OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2z2t RCSB], [http://www.ebi.ac.uk/pdbsum/2z2t 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=2z2t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z2t OCA], [http://pdbe.org/2z2t PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2z2t RCSB], [http://www.ebi.ac.uk/pdbsum/2z2t PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 15:		Line 15:
	<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=2z2t ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>

OCA at 10:59, 20 January 2015

2015-01-20T10:59:53Z

←Older revision		Revision as of 10:59, 20 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2z2t]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z2T OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2Z2T FirstGlance]. <br>		<table><tr><td colspan='2'>[[2z2t]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z2T OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2Z2T FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene>, <scene name='pdbligand=NLE:NORLEUCINE'>NLE</scene></td></tr>	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene>, <scene name='pdbligand=NLE:NORLEUCINE'>NLE</scene></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=2z2t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z2t OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2z2t RCSB], [http://www.ebi.ac.uk/pdbsum/2z2t 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=2z2t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z2t OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2z2t RCSB], [http://www.ebi.ac.uk/pdbsum/2z2t PDBsum]</span></td></tr>
-	<table>	+	</table>
	== 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: Kobayashi, Y.]]	+	[[Category: Kobayashi, Y]]
-	[[Category: Nakamura, S.]]	+	[[Category: Nakamura, S]]
-	[[Category: Ohkubo, T.]]	+	[[Category: Ohkubo, T]]
	[[Category: Coiled-coil]]		[[Category: Coiled-coil]]
	[[Category: Viral protein-inhibitor complex]]		[[Category: Viral protein-inhibitor complex]]

OCA at 05:15, 2 October 2014

2014-10-02T05:15:20Z

←Older revision		Revision as of 05:15, 2 October 2014
Line 1:		Line 1:
-	[[~~Image:~~2z2t.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of the complex between gp41 fragment N36 and fusion inhibitor SC34EK==
		+	<StructureSection load='2z2t' size='340' side='right' caption='[[2z2t]], [[Resolution\|resolution]] 2.10Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2z2t]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z2T OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2Z2T FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene>, <scene name='pdbligand=NLE:NORLEUCINE'>NLE</scene></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=2z2t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z2t OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2z2t RCSB], [http://www.ebi.ac.uk/pdbsum/2z2t 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/z2/2z2t_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>

-	~~{{STRUCTURE_2z2t\| PDB~~=~~2z2t \| SCENE= }}~~	+	==See Also==
-		+	*[[Gp41\|Gp41]]
-	~~===Crystal structure of the complex between gp41 fragment N36 and fusion inhibitor SC34EK~~===	+	__TOC__
-		+	</StructureSection>
-		+
-	~~==About this Structure==~~	+
-	[[~~2z2t~~]] ~~is a 6 chain structure. Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2Z2T OCA].~~	+
	[[Category: Kobayashi, Y.]]		[[Category: Kobayashi, Y.]]
	[[Category: Nakamura, S.]]		[[Category: Nakamura, S.]]

OCA: Protected "2z2t" [edit=sysop:move=sysop]

2013-01-07T19:51:10Z

Protected "2z2t" [edit=sysop:move=sysop]

←Older revision

Revision as of 19:51, 7 January 2013

OCA at 19:51, 7 January 2013

2013-01-07T19:51:08Z

←Older revision		Revision as of 19:51, 7 January 2013
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-	{{Seed}}
	[[Image:2z2t.png\|left\|200px]]		[[Image:2z2t.png\|left\|200px]]

-	<!--
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-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
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	{{STRUCTURE_2z2t\| PDB=2z2t \| SCENE= }}		{{STRUCTURE_2z2t\| PDB=2z2t \| SCENE= }}

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	==About this Structure==		==About this Structure==
-	~~2Z2T~~ is a 6 ~~chains~~ structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z2T OCA].	+	[[2z2t]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z2T OCA].
	[[Category: Kobayashi, Y.]]		[[Category: Kobayashi, Y.]]
	[[Category: Nakamura, S.]]		[[Category: Nakamura, S.]]
	[[Category: Ohkubo, T.]]		[[Category: Ohkubo, T.]]
	[[Category: Coiled-coil]]		[[Category: Coiled-coil]]
-	[[Category: Viral protein/inhibitor complex]]	+	[[Category: Viral protein-inhibitor complex]]
-		+
-	~~''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 17:20:27 2009''~~	+

OCA at 15:20, 16 February 2009

2009-02-16T15:20:28Z

←Older revision		Revision as of 15:20, 16 February 2009
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-	[[Image:2z2t.~~jpg~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:2z2t.png\|left\|200px]]

	<!--		<!--
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	{{STRUCTURE_2z2t\| PDB=2z2t \| SCENE= }}		{{STRUCTURE_2z2t\| PDB=2z2t \| SCENE= }}

-	~~'''~~Crystal structure of the complex between gp41 fragment N36 and fusion inhibitor SC34EK~~'''~~	+	===Crystal structure of the complex between gp41 fragment N36 and fusion inhibitor SC34EK===


	==About this Structure==		==About this Structure==
-	2Z2T is a ~~[[Protein complex]]~~ structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z2T OCA].	+	2Z2T is a 6 chains structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z2T OCA].
-	~~[[Category: Protein complex]]~~	+
	[[Category: Kobayashi, Y.]]		[[Category: Kobayashi, Y.]]
	[[Category: Nakamura, S.]]		[[Category: Nakamura, S.]]
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	[[Category: Coiled-coil]]		[[Category: Coiled-coil]]
	[[Category: Viral protein/inhibitor complex]]		[[Category: Viral protein/inhibitor complex]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed Jun 4 09~~:53:~~36 2008~~''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 17:20:27 2009''