1fmb - Revision history

OCA at 07:16, 7 February 2024

2024-02-07T07:16:20Z

←Older revision		Revision as of 07:16, 7 February 2024
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	<StructureSection load='1fmb' size='340' side='right'caption='[[1fmb]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1fmb' size='340' side='right'caption='[[1fmb]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1fmb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Eiav Eiav~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FMB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1FMB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1fmb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Equine_infectious_anemia_virus Equine infectious anemia virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FMB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1FMB FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=HYB:~~[~~2-(2-METHYL-PROPANE-2-SULFONYLMETHYL)-3-NAPHTHALEN-~~1~~-YL-PROPIONYL-VALINYL]-PHENYLALANINOL'>HYB</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]] 1.8Å</td></tr>
-	<tr id='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"><~~span class~~='~~plainlinks'>[https~~:~~//en.wikipedia.org/wiki/HIV~~-~~1_retropepsin HIV~~-1 ~~retropepsin~~]~~, with EC number [https://www.brenda~~-~~enzymes.info/php/result_flat.php4?ecno=3.4.23.16 3.4.23.16]~~ </~~span~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HYB:[2-(2-METHYL-PROPANE-2-SULFONYLMETHYL)-3-NAPHTHALEN-1-YL-PROPIONYL-VALINYL]-PHENYLALANINOL'>HYB</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=1fmb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1fmb OCA], [https://pdbe.org/1fmb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1fmb RCSB], [https://www.ebi.ac.uk/pdbsum/1fmb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1fmb 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=1fmb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1fmb OCA], [https://pdbe.org/1fmb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1fmb RCSB], [https://www.ebi.ac.uk/pdbsum/1fmb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1fmb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/POL_EIAVC POL_EIAVC]] During replicative cycle of retroviruses, the reverse-transcribed viral DNA is integrated into the host chromosome by the viral integrase enzyme. RNase H activity is associated with the reverse transcriptase.	+	[https://www.uniprot.org/uniprot/POL_EIAVC POL_EIAVC] During replicative cycle of retroviruses, the reverse-transcribed viral DNA is integrated into the host chromosome by the viral integrase enzyme. RNase H activity is associated with the reverse transcriptase.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 20:		Line 20:
	</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=1fmb 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=1fmb ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Equine infectious anemia virus (EIAV), the causative agent of infectious anemia in horses, is a member of the lentiviral family. The virus-encoded proteinase (PR) processes viral polyproteins into functional molecules during replication and it also cleaves viral nucleocapsid protein during infection. The X-ray structure of a complex of the 154G mutant of EIAV PR with the inhibitor HBY-793 was solved at 1.8 A resolution and refined to a crystallographic R-factor of 0.136. The molecule is a dimer in which the monomers are related by a crystallographic twofold axis. Although both the enzyme and the inhibitor are symmetric, the interactions between the central part of the inhibitor and the active site aspartates are asymmetric, and the inhibitor and the two flaps are partially disordered. The overall fold of EIAV PR is very similar to that of other retroviral proteinases. However, a novel feature of the EIAV PR structure is the appearance of the second alpha-helix in the monomer in a position predicted by the structural template for the family of aspartic proteinases. The parts of the EIAV PR with the highest resemblance to human immunodeficiency virus type 1 PR include the substrate-binding sites; thus, the differences in the specificity of both enzymes have to be explained by enzyme-ligand interactions at the periphery of the active site as well.
-
-	Structure of equine infectious anemia virus proteinase complexed with an inhibitor.,Gustchina A, Kervinen J, Powell DJ, Zdanov A, Kay J, Wlodawer A Protein Sci. 1996 Aug;5(8):1453-65. PMID:8844837<ref>PMID:8844837</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1fmb" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Virus protease 3D structures\|Virus protease 3D structures]]		*[[Virus protease 3D structures\|Virus protease 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Eiav]]~~	+	[[Category: Equine infectious anemia virus]]
-	~~[[Category: HIV-1 retropepsin~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Gustchina, A]]	+	[[Category: Gustchina A]]
-	[[Category: Kervinen, J]]	+	[[Category: Kervinen J]]
-	[[Category: Wlodawer, A]]	+	[[Category: Wlodawer A]]
-	[[Category: Zdanov, A]]	+	[[Category: Zdanov A]]
-	~~[[Category: Aspartyl protease]]~~	+
-	~~[[Category: Endonuclease]]~~	+
-	~~[[Category: Polyprotein]]~~	+
-	~~[[Category: Rna-directed dna polymerase~~]]	+

OCA at 11:11, 28 July 2021

2021-07-28T11:11:51Z

←Older revision		Revision as of 11:11, 28 July 2021
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	<StructureSection load='1fmb' size='340' side='right'caption='[[1fmb]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1fmb' size='340' side='right'caption='[[1fmb]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1fmb]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Eiav Eiav]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FMB OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1FMB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1fmb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Eiav Eiav]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FMB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1FMB FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HYB:[2-(2-METHYL-PROPANE-2-SULFONYLMETHYL)-3-NAPHTHALEN-1-YL-PROPIONYL-VALINYL]-PHENYLALANINOL'>HYB</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HYB:[2-(2-METHYL-PROPANE-2-SULFONYLMETHYL)-3-NAPHTHALEN-1-YL-PROPIONYL-VALINYL]-PHENYLALANINOL'>HYB</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/HIV-1_retropepsin HIV-1 retropepsin], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.23.16 3.4.23.16] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/HIV-1_retropepsin HIV-1 retropepsin], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.23.16 3.4.23.16] </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=1fmb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1fmb OCA], [~~http~~://pdbe.org/1fmb PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1fmb RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1fmb PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1fmb 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=1fmb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1fmb OCA], [https://pdbe.org/1fmb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1fmb RCSB], [https://www.ebi.ac.uk/pdbsum/1fmb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1fmb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/POL_EIAVC POL_EIAVC]] During replicative cycle of retroviruses, the reverse-transcribed viral DNA is integrated into the host chromosome by the viral integrase enzyme. RNase H activity is associated with the reverse transcriptase.	+	[[https://www.uniprot.org/uniprot/POL_EIAVC POL_EIAVC]] During replicative cycle of retroviruses, the reverse-transcribed viral DNA is integrated into the host chromosome by the viral integrase enzyme. RNase H activity is associated with the reverse transcriptase.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 31:		Line 31:

	==See Also==		==See Also==
-	*[[Virus protease\|Virus protease]]	+	*[[Virus protease 3D structures\|Virus protease 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 09:10, 23 October 2019

2019-10-23T09:10:15Z

←Older revision		Revision as of 09:10, 23 October 2019
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	==EIAV PROTEASE COMPLEXED WITH THE INHIBITOR HBY-793==		==EIAV PROTEASE COMPLEXED WITH THE INHIBITOR HBY-793==
-	<StructureSection load='1fmb' size='340' side='right' caption='[[1fmb]], [[Resolution\|resolution]] 1.80Å' scene=''>	+	<StructureSection load='1fmb' size='340' side='right'caption='[[1fmb]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1fmb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Eiav Eiav]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FMB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1FMB FirstGlance]. <br>		<table><tr><td colspan='2'>[[1fmb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Eiav Eiav]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FMB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1FMB FirstGlance]. <br>
Line 29:		Line 29:
	</div>		</div>
	<div class="pdbe-citations 1fmb" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1fmb" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Virus protease\|Virus protease]]
	== References ==		== References ==
	<references/>		<references/>
Line 35:		Line 38:
	[[Category: Eiav]]		[[Category: Eiav]]
	[[Category: HIV-1 retropepsin]]		[[Category: HIV-1 retropepsin]]
		+	[[Category: Large Structures]]
	[[Category: Gustchina, A]]		[[Category: Gustchina, A]]
	[[Category: Kervinen, J]]		[[Category: Kervinen, J]]

OCA at 09:30, 27 December 2017

2017-12-27T09:30:47Z

←Older revision		Revision as of 09:30, 27 December 2017
Line 1:		Line 1:
		+
	==EIAV PROTEASE COMPLEXED WITH THE INHIBITOR HBY-793==		==EIAV PROTEASE COMPLEXED WITH THE INHIBITOR HBY-793==
	<StructureSection load='1fmb' size='340' side='right' caption='[[1fmb]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1fmb' size='340' side='right' caption='[[1fmb]], [[Resolution\|resolution]] 1.80Å' scene=''>
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	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HYB:[2-(2-METHYL-PROPANE-2-SULFONYLMETHYL)-3-NAPHTHALEN-1-YL-PROPIONYL-VALINYL]-PHENYLALANINOL'>HYB</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HYB:[2-(2-METHYL-PROPANE-2-SULFONYLMETHYL)-3-NAPHTHALEN-1-YL-PROPIONYL-VALINYL]-PHENYLALANINOL'>HYB</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/HIV-1_retropepsin HIV-1 retropepsin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.23.16 3.4.23.16] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/HIV-1_retropepsin HIV-1 retropepsin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.23.16 3.4.23.16] </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=1fmb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1fmb OCA], [http://pdbe.org/1fmb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1fmb RCSB], [http://www.ebi.ac.uk/pdbsum/1fmb 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=1fmb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1fmb OCA], [http://pdbe.org/1fmb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1fmb RCSB], [http://www.ebi.ac.uk/pdbsum/1fmb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1fmb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 13:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/fm/1fmb_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/fm/1fmb_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 05:08, 9 February 2016

2016-02-09T05:08:44Z

←Older revision		Revision as of 05:08, 9 February 2016
Line 17:		Line 17:
	<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=1fmb ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 18:56, 10 September 2015

2015-09-10T18:56:20Z

←Older revision		Revision as of 18:56, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1fmb' size='340' side='right' caption='[[1fmb]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1fmb' size='340' side='right' caption='[[1fmb]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1fmb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Equine_infectious_anemia_virus Equine infectious anemia virus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FMB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1FMB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1fmb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Eiav Eiav]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FMB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1FMB FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HYB:[2-(2-METHYL-PROPANE-2-SULFONYLMETHYL)-3-NAPHTHALEN-1-YL-PROPIONYL-VALINYL]-PHENYLALANINOL'>HYB</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HYB:[2-(2-METHYL-PROPANE-2-SULFONYLMETHYL)-3-NAPHTHALEN-1-YL-PROPIONYL-VALINYL]-PHENYLALANINOL'>HYB</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/HIV-1_retropepsin HIV-1 retropepsin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.23.16 3.4.23.16] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/HIV-1_retropepsin HIV-1 retropepsin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.23.16 3.4.23.16] </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=1fmb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1fmb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1fmb RCSB], [http://www.ebi.ac.uk/pdbsum/1fmb 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=1fmb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1fmb OCA], [http://pdbe.org/1fmb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1fmb RCSB], [http://www.ebi.ac.uk/pdbsum/1fmb PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 27:		Line 27:
	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 1fmb" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Equine infectious anemia virus~~]]	+	[[Category: Eiav]]
	[[Category: HIV-1 retropepsin]]		[[Category: HIV-1 retropepsin]]
	[[Category: Gustchina, A]]		[[Category: Gustchina, A]]

OCA at 04:38, 25 December 2014

2014-12-25T04:38:46Z

←Older revision		Revision as of 04:38, 25 December 2014
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	<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=1fmb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1fmb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1fmb RCSB], [http://www.ebi.ac.uk/pdbsum/1fmb 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=1fmb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1fmb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1fmb RCSB], [http://www.ebi.ac.uk/pdbsum/1fmb PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/POL_EIAVC POL_EIAVC]] During replicative cycle of retroviruses, the reverse-transcribed viral DNA is integrated into the host chromosome by the viral integrase enzyme. RNase H activity is associated with the reverse transcriptase.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 21:37, 22 December 2014

2014-12-22T21:37:24Z

←Older revision		Revision as of 21:37, 22 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1fmb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Equine_infectious_anemia_virus Equine infectious anemia virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FMB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1FMB FirstGlance]. <br>		<table><tr><td colspan='2'>[[1fmb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Equine_infectious_anemia_virus Equine infectious anemia virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FMB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1FMB FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HYB:[2-(2-METHYL-PROPANE-2-SULFONYLMETHYL)-3-NAPHTHALEN-1-YL-PROPIONYL-VALINYL]-PHENYLALANINOL'>HYB</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HYB:[2-(2-METHYL-PROPANE-2-SULFONYLMETHYL)-3-NAPHTHALEN-1-YL-PROPIONYL-VALINYL]-PHENYLALANINOL'>HYB</scene></td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/HIV-1_retropepsin HIV-1 retropepsin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.23.16 3.4.23.16] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/HIV-1_retropepsin HIV-1 retropepsin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.23.16 3.4.23.16] </span></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=1fmb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1fmb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1fmb RCSB], [http://www.ebi.ac.uk/pdbsum/1fmb 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=1fmb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1fmb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1fmb RCSB], [http://www.ebi.ac.uk/pdbsum/1fmb 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 31:		Line 31:
	[[Category: Equine infectious anemia virus]]		[[Category: Equine infectious anemia virus]]
	[[Category: HIV-1 retropepsin]]		[[Category: HIV-1 retropepsin]]
-	[[Category: Gustchina, A.]]	+	[[Category: Gustchina, A]]
-	[[Category: Kervinen, J.]]	+	[[Category: Kervinen, J]]
-	[[Category: Wlodawer, A.]]	+	[[Category: Wlodawer, A]]
-	[[Category: Zdanov, A.]]	+	[[Category: Zdanov, A]]
	[[Category: Aspartyl protease]]		[[Category: Aspartyl protease]]
	[[Category: Endonuclease]]		[[Category: Endonuclease]]
	[[Category: Polyprotein]]		[[Category: Polyprotein]]
	[[Category: Rna-directed dna polymerase]]		[[Category: Rna-directed dna polymerase]]

OCA at 11:27, 28 September 2014

2014-09-28T11:27:18Z

←Older revision		Revision as of 11:27, 28 September 2014
Line 1:		Line 1:
-	[[~~Image~~:1fmb.~~png\|left~~\|200px]]	+	==EIAV PROTEASE COMPLEXED WITH THE INHIBITOR HBY-793==
		+	<StructureSection load='1fmb' size='340' side='right' caption='[[1fmb]], [[Resolution\|resolution]] 1.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1fmb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Equine_infectious_anemia_virus Equine infectious anemia virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FMB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1FMB FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HYB:[2-(2-METHYL-PROPANE-2-SULFONYLMETHYL)-3-NAPHTHALEN-1-YL-PROPIONYL-VALINYL]-PHENYLALANINOL'>HYB</scene><br>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/HIV-1_retropepsin HIV-1 retropepsin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.23.16 3.4.23.16] </span></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=1fmb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1fmb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1fmb RCSB], [http://www.ebi.ac.uk/pdbsum/1fmb 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/fm/1fmb_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 ==
		+	Equine infectious anemia virus (EIAV), the causative agent of infectious anemia in horses, is a member of the lentiviral family. The virus-encoded proteinase (PR) processes viral polyproteins into functional molecules during replication and it also cleaves viral nucleocapsid protein during infection. The X-ray structure of a complex of the 154G mutant of EIAV PR with the inhibitor HBY-793 was solved at 1.8 A resolution and refined to a crystallographic R-factor of 0.136. The molecule is a dimer in which the monomers are related by a crystallographic twofold axis. Although both the enzyme and the inhibitor are symmetric, the interactions between the central part of the inhibitor and the active site aspartates are asymmetric, and the inhibitor and the two flaps are partially disordered. The overall fold of EIAV PR is very similar to that of other retroviral proteinases. However, a novel feature of the EIAV PR structure is the appearance of the second alpha-helix in the monomer in a position predicted by the structural template for the family of aspartic proteinases. The parts of the EIAV PR with the highest resemblance to human immunodeficiency virus type 1 PR include the substrate-binding sites; thus, the differences in the specificity of both enzymes have to be explained by enzyme-ligand interactions at the periphery of the active site as well.

-	~~{{STRUCTURE_1fmb\| PDB=1fmb \| SCENE= }}~~	+	Structure of equine infectious anemia virus proteinase complexed with an inhibitor.,Gustchina A, Kervinen J, Powell DJ, Zdanov A, Kay J, Wlodawer A Protein Sci. 1996 Aug;5(8):1453-65. PMID:8844837<ref>PMID:8844837</ref>

-	~~===EIAV PROTEASE COMPLEXED WITH THE INHIBITOR HBY-793===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_8844837}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1fmb]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Equine_infectious_anemia_virus Equine infectious anemia virus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1FMB OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:008844837<~~/~~ref~~><~~ref group="xtra">PMID:017352531</ref><references group="xtra"~~/>	+
	[[Category: Equine infectious anemia virus]]		[[Category: Equine infectious anemia virus]]
	[[Category: HIV-1 retropepsin]]		[[Category: HIV-1 retropepsin]]

OCA: Protected "1fmb" [edit=sysop:move=sysop]

2012-11-21T10:13:13Z

Protected "1fmb" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:13, 21 November 2012