3iba - Revision history

OCA at 10:04, 21 February 2024

OCA — Wed, 21 Feb 2024 10:04:44 GMT

←Older revision		Revision as of 10:04, 21 February 2024
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	<StructureSection load='3iba' size='340' side='right'caption='[[3iba]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='3iba' size='340' side='right'caption='[[3iba]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3iba]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Trycr Trycr~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IBA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3IBA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3iba]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Trypanosoma_cruzi Trypanosoma cruzi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IBA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3IBA FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IPE:3-METHYLBUT-3-ENYL+TRIHYDROGEN+DIPHOSPHATE'>IPE</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZOL:ZOLEDRONIC+ACID'>ZOL</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]] 2.4Å</td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3ick\|3ick]], [[1yhl\|1yhl]], [[1ykm\|1ykm]], [[1yhk\|1yhk]], [[3icn\|3icn]], [[3icz\|3icz]], [[3id0\|3id0]], [[3icm\|3icm]]</div></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IPE:3-METHYLBUT-3-ENYL+TRIHYDROGEN+DIPHOSPHATE'>IPE</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZOL:ZOLEDRONIC+ACID'>ZOL</scene></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">FPPS ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5693 TRYCR])</td></tr>~~	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/(2E,6E)-farnesyl_diphosphate_synthase (2E,6E)-farnesyl diphosphate synthase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.10 2.5.1.10] </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=3iba FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3iba OCA], [https://pdbe.org/3iba PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3iba RCSB], [https://www.ebi.ac.uk/pdbsum/3iba PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3iba 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=3iba FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3iba OCA], [https://pdbe.org/3iba PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3iba RCSB], [https://www.ebi.ac.uk/pdbsum/3iba PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3iba ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q95WL3_TRYCR Q95WL3_TRYCR]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</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=3iba 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=3iba ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Bisphosphonates (BPs) are a class of compounds that have been used extensively in the treatment of osteoporosis and malignancy-related hypercalcemia. Some of these compounds act through inhibition of farnesyl diphosphate synthase (FPPS), a key enzyme in the synthesis of isoprenoids. Recently, nitrogen-containing bisphosphonates (N-BPs) used in bone resorption therapy have been shown to be active against Trypanosoma cruzi, the parasite that causes American trypanosomiasis (Chagas disease), suggesting that they may be used as anti-trypanosomal agents. The crystal structures of TcFPPS in complex with substrate (isopentenyl diphosphate, IPP) and five N-BP inhibitors show that the C-1 hydroxyl and the nitrogen-containing groups of the inhibitors alter the binding of IPP and the conformation of two TcFPPS residues, Tyr94 and Gln167. Isothermal titration calorimetry experiments suggest that binding of the first N-BPs to the homodimeric TcFPPS changes the binding properties of the second site. This mechanism of binding of N-BPs to TcFPPS is different to that reported for the binding of the same compounds to human FPPS. Proteins 2010. (c) 2009 Wiley-Liss, Inc.
-
-	Binding of nitrogen-containing bisphosphonates (N-BPs) to the Trypanosoma cruzi farnesyl diphosphate synthase homodimer.,Huang CH, Gabelli SB, Oldfield E, Amzel LM Proteins. 2010 Mar;78(4):888-99. PMID:19876942<ref>PMID:19876942</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 3iba" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Farnesyl diphosphate synthase 3D structures\|Farnesyl diphosphate synthase 3D structures]]		*[[Farnesyl diphosphate synthase 3D structures\|Farnesyl diphosphate synthase 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Trycr]]
-	[[Category: Amzel, L M]]
-	[[Category: Gabelli, S B]]
-	[[Category: Huang, C H]]
-	[[Category: Oldfield, E]]
-	[[Category: Bisphosphonate]]
-	[[Category: Chagas disease]]
-	[[Category: Fpp]]
-	[[Category: Isopentenyl pyrophosphate]]
-	[[Category: Isoprene biosynthesis]]
-	[[Category: Transferase]]
	[[Category: Trypanosoma cruzi]]		[[Category: Trypanosoma cruzi]]
		+	[[Category: Amzel LM]]
		+	[[Category: Gabelli SB]]
		+	[[Category: Huang CH]]
		+	[[Category: Oldfield E]]

OCA at 03:28, 21 April 2022

OCA — Thu, 21 Apr 2022 03:28:20 GMT

←Older revision		Revision as of 03:28, 21 April 2022
Line 1:		Line 1:

	==Crystal structure of the complex of Trypanosoma cruzi farnesyl diphosphate synthase with zoledronate, IPP and Mg2+==		==Crystal structure of the complex of Trypanosoma cruzi farnesyl diphosphate synthase with zoledronate, IPP and Mg2+==
-	<StructureSection load='3iba' size='340' side='right' caption='[[3iba]], [[Resolution\|resolution]] 2.40Å' scene=''>	+	<StructureSection load='3iba' size='340' side='right'caption='[[3iba]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3iba]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Trycr Trycr]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IBA OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3IBA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3iba]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Trycr Trycr]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IBA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3IBA FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IPE:3-METHYLBUT-3-ENYL+TRIHYDROGEN+DIPHOSPHATE'>IPE</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZOL:ZOLEDRONIC+ACID'>ZOL</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IPE:3-METHYLBUT-3-ENYL+TRIHYDROGEN+DIPHOSPHATE'>IPE</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZOL:ZOLEDRONIC+ACID'>ZOL</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ick\|3ick]], [[1yhl\|1yhl]], [[1ykm\|1ykm]], [[1yhk\|1yhk]], [[3icn\|3icn]], [[3icz\|3icz]], [[3id0\|3id0]], [[3icm\|3icm]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3ick\|3ick]], [[1yhl\|1yhl]], [[1ykm\|1ykm]], [[1yhk\|1yhk]], [[3icn\|3icn]], [[3icz\|3icz]], [[3id0\|3id0]], [[3icm\|3icm]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">FPPS ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5693 TRYCR])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">FPPS ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5693 TRYCR])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/(2E,6E)-farnesyl_diphosphate_synthase (2E,6E)-farnesyl diphosphate synthase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.10 2.5.1.10] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/(2E,6E)-farnesyl_diphosphate_synthase (2E,6E)-farnesyl diphosphate synthase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.10 2.5.1.10] </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=3iba FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3iba OCA], [~~http~~://pdbe.org/3iba PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3iba RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3iba PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3iba 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=3iba FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3iba OCA], [https://pdbe.org/3iba PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3iba RCSB], [https://www.ebi.ac.uk/pdbsum/3iba PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3iba ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 31:		Line 31:

	==See Also==		==See Also==
-	*[[Farnesyl diphosphate synthase\|Farnesyl diphosphate synthase]]	+	*[[Farnesyl diphosphate synthase 3D structures\|Farnesyl diphosphate synthase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Trycr]]		[[Category: Trycr]]
	[[Category: Amzel, L M]]		[[Category: Amzel, L M]]

OCA at 09:27, 19 December 2018

OCA — Wed, 19 Dec 2018 09:27:59 GMT

←Older revision		Revision as of 09:27, 19 December 2018
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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/ib/3iba_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ib/3iba_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 06:52, 5 August 2016

OCA — Fri, 05 Aug 2016 06:52:23 GMT

←Older revision		Revision as of 06:52, 5 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of the complex of Trypanosoma cruzi farnesyl diphosphate synthase with zoledronate, IPP and Mg2+==		==Crystal structure of the complex of Trypanosoma cruzi farnesyl diphosphate synthase with zoledronate, IPP and Mg2+==
	<StructureSection load='3iba' size='340' side='right' caption='[[3iba]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='3iba' size='340' side='right' caption='[[3iba]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3iba]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Trypanosoma_cruzi Trypanosoma cruzi~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IBA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3IBA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3iba]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Trycr Trycr]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IBA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3IBA FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IPE:3-METHYLBUT-3-ENYL+TRIHYDROGEN+DIPHOSPHATE'>IPE</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZOL:ZOLEDRONIC+ACID'>ZOL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IPE:3-METHYLBUT-3-ENYL+TRIHYDROGEN+DIPHOSPHATE'>IPE</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZOL:ZOLEDRONIC+ACID'>ZOL</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ick\|3ick]], [[1yhl\|1yhl]], [[1ykm\|1ykm]], [[1yhk\|1yhk]], [[3icn\|3icn]], [[3icz\|3icz]], [[3id0\|3id0]], [[3icm\|3icm]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ick\|3ick]], [[1yhl\|1yhl]], [[1ykm\|1ykm]], [[1yhk\|1yhk]], [[3icn\|3icn]], [[3icz\|3icz]], [[3id0\|3id0]], [[3icm\|3icm]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">FPPS ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5693 ~~Trypanosoma cruzi~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">FPPS ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5693 TRYCR])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/(2E,6E)-farnesyl_diphosphate_synthase (2E,6E)-farnesyl diphosphate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.10 2.5.1.10] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/(2E,6E)-farnesyl_diphosphate_synthase (2E,6E)-farnesyl diphosphate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.10 2.5.1.10] </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=3iba FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3iba OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3iba RCSB], [http://www.ebi.ac.uk/pdbsum/3iba 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=3iba FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3iba OCA], [http://pdbe.org/3iba PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3iba RCSB], [http://www.ebi.ac.uk/pdbsum/3iba PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3iba ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 17:		Line 18:
	<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=3iba ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	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 3iba" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Trypanosoma cruzi~~]]	+	[[Category: Trycr]]
	[[Category: Amzel, L M]]		[[Category: Amzel, L M]]
	[[Category: Gabelli, S B]]		[[Category: Gabelli, S B]]
Line 45:		Line 47:
	[[Category: Isoprene biosynthesis]]		[[Category: Isoprene biosynthesis]]
	[[Category: Transferase]]		[[Category: Transferase]]
		+	[[Category: Trypanosoma cruzi]]

OCA at 17:30, 18 December 2014

OCA — Thu, 18 Dec 2014 17:30:01 GMT

←Older revision		Revision as of 17:30, 18 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_3iba\| PDB=3iba \| SCENE= }}~~	+	==Crystal structure of the complex of Trypanosoma cruzi farnesyl diphosphate synthase with zoledronate, IPP and Mg2+==
-	===Crystal structure of the complex of Trypanosoma cruzi farnesyl diphosphate synthase with zoledronate, IPP and Mg2+===	+	<StructureSection load='3iba' size='340' side='right' caption='[[3iba]], [[Resolution\|resolution]] 2.40Å' scene=''>
-	~~{{ABSTRACT_PUBMED_19876942}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3iba]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Trypanosoma_cruzi Trypanosoma cruzi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IBA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3IBA FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IPE:3-METHYLBUT-3-ENYL+TRIHYDROGEN+DIPHOSPHATE'>IPE</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZOL:ZOLEDRONIC+ACID'>ZOL</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ick\|3ick]], [[1yhl\|1yhl]], [[1ykm\|1ykm]], [[1yhk\|1yhk]], [[3icn\|3icn]], [[3icz\|3icz]], [[3id0\|3id0]], [[3icm\|3icm]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">FPPS ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5693 Trypanosoma cruzi])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/(2E,6E)-farnesyl_diphosphate_synthase (2E,6E)-farnesyl diphosphate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.10 2.5.1.10] </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=3iba FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3iba OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3iba RCSB], [http://www.ebi.ac.uk/pdbsum/3iba 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/ib/3iba_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 ==
		+	Bisphosphonates (BPs) are a class of compounds that have been used extensively in the treatment of osteoporosis and malignancy-related hypercalcemia. Some of these compounds act through inhibition of farnesyl diphosphate synthase (FPPS), a key enzyme in the synthesis of isoprenoids. Recently, nitrogen-containing bisphosphonates (N-BPs) used in bone resorption therapy have been shown to be active against Trypanosoma cruzi, the parasite that causes American trypanosomiasis (Chagas disease), suggesting that they may be used as anti-trypanosomal agents. The crystal structures of TcFPPS in complex with substrate (isopentenyl diphosphate, IPP) and five N-BP inhibitors show that the C-1 hydroxyl and the nitrogen-containing groups of the inhibitors alter the binding of IPP and the conformation of two TcFPPS residues, Tyr94 and Gln167. Isothermal titration calorimetry experiments suggest that binding of the first N-BPs to the homodimeric TcFPPS changes the binding properties of the second site. This mechanism of binding of N-BPs to TcFPPS is different to that reported for the binding of the same compounds to human FPPS. Proteins 2010. (c) 2009 Wiley-Liss, Inc.

-	~~==About this Structure==~~	+	Binding of nitrogen-containing bisphosphonates (N-BPs) to the Trypanosoma cruzi farnesyl diphosphate synthase homodimer.,Huang CH, Gabelli SB, Oldfield E, Amzel LM Proteins. 2010 Mar;78(4):888-99. PMID:19876942<ref>PMID:19876942</ref>
-	~~[[3iba]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Trypanosoma_cruzi~~ Trypanosoma cruzi]. ~~Full crystallographic information is available from [http~~://~~oca~~.~~weizmann~~.ac.il/~~oca-bin/ocashort?id=3IBA OCA].~~	+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

	==See Also==		==See Also==
	*[[Farnesyl diphosphate synthase\|Farnesyl diphosphate synthase]]		*[[Farnesyl diphosphate synthase\|Farnesyl diphosphate synthase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	~~<ref group="xtra">PMID:019876942</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Trypanosoma cruzi]]		[[Category: Trypanosoma cruzi]]
-	[[Category: Amzel, L M.]]	+	[[Category: Amzel, L M]]
-	[[Category: Gabelli, S B.]]	+	[[Category: Gabelli, S B]]
-	[[Category: Huang, C H.]]	+	[[Category: Huang, C H]]
-	[[Category: Oldfield, E.]]	+	[[Category: Oldfield, E]]
	[[Category: Bisphosphonate]]		[[Category: Bisphosphonate]]
	[[Category: Chagas disease]]		[[Category: Chagas disease]]
Line 22:		Line 45:
	[[Category: Isoprene biosynthesis]]		[[Category: Isoprene biosynthesis]]
	[[Category: Transferase]]		[[Category: Transferase]]
-	[[Category: Trypanosoma cruzi]]

OCA at 19:29, 17 April 2013

OCA — Wed, 17 Apr 2013 19:29:40 GMT

←Older revision		Revision as of 19:29, 17 April 2013
Line 1:		Line 1:
-	[[Image:3iba.png\|left\|200px]]
-
	{{STRUCTURE_3iba\| PDB=3iba \| SCENE= }}		{{STRUCTURE_3iba\| PDB=3iba \| SCENE= }}
-
	===Crystal structure of the complex of Trypanosoma cruzi farnesyl diphosphate synthase with zoledronate, IPP and Mg2+===		===Crystal structure of the complex of Trypanosoma cruzi farnesyl diphosphate synthase with zoledronate, IPP and Mg2+===
-
	{{ABSTRACT_PUBMED_19876942}}		{{ABSTRACT_PUBMED_19876942}}

Line 14:		Line 10:

	==Reference==		==Reference==
-	<ref group="xtra">PMID:019876942</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019876942</ref><references group="xtra"/><references/>
-	~~[[Category: Geranyltranstransferase]]~~	+
	[[Category: Trypanosoma cruzi]]		[[Category: Trypanosoma cruzi]]
	[[Category: Amzel, L M.]]		[[Category: Amzel, L M.]]

OCA at 19:00, 20 October 2012

OCA — Sat, 20 Oct 2012 19:00:19 GMT

←Older revision		Revision as of 19:00, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[3iba]] is a 1 chain structure ~~of [[Farnesyl diphosphate synthase]]~~ with sequence from [http://en.wikipedia.org/wiki/Trypanosoma_cruzi Trypanosoma cruzi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IBA OCA].	+	[[3iba]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Trypanosoma_cruzi Trypanosoma cruzi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IBA OCA].

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

OCA: Protected "3iba" [edit=sysop:move=sysop]

OCA — Fri, 27 Jul 2012 05:58:44 GMT

Protected "3iba" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:58, 27 July 2012

OCA at 05:58, 27 July 2012

OCA — Fri, 27 Jul 2012 05:58:41 GMT

←Older revision		Revision as of 05:58, 27 July 2012
Line 1:		Line 1:
-	~~{{Seed}}~~	+	[[Image:3iba.png\|left\|200px]]
-	[[Image:3iba.~~jpg~~\|left\|200px]]	+

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3iba", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_3iba\| PDB=3iba \| SCENE= }}		{{STRUCTURE_3iba\| PDB=3iba \| SCENE= }}

	===Crystal structure of the complex of Trypanosoma cruzi farnesyl diphosphate synthase with zoledronate, IPP and Mg2+===		===Crystal structure of the complex of Trypanosoma cruzi farnesyl diphosphate synthase with zoledronate, IPP and Mg2+===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_19876942}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 19876942 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_19876942}}		{{ABSTRACT_PUBMED_19876942}}

	==About this Structure==		==About this Structure==
-	~~3IBA~~ is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Trypanosoma_cruzi Trypanosoma cruzi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IBA OCA].	+	[[3iba]] is a 1 chain structure of [[Farnesyl diphosphate synthase]] with sequence from [http://en.wikipedia.org/wiki/Trypanosoma_cruzi Trypanosoma cruzi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IBA OCA].
		+
		+	==See Also==
		+	*[[Farnesyl diphosphate synthase\|Farnesyl diphosphate synthase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~19876942~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019876942</ref><references group="xtra"/>
	[[Category: Geranyltranstransferase]]		[[Category: Geranyltranstransferase]]
	[[Category: Trypanosoma cruzi]]		[[Category: Trypanosoma cruzi]]
Line 37:		Line 28:
	[[Category: Transferase]]		[[Category: Transferase]]
	[[Category: Trypanosoma cruzi]]		[[Category: Trypanosoma cruzi]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 10 17:29:08 2010''

OCA at 15:29, 10 February 2010

OCA — Wed, 10 Feb 2010 15:29:08 GMT

←Older revision		Revision as of 15:29, 10 February 2010
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3iba.jpg\|left\|200px]]

-	The ~~entry 3iba~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3iba", creates the "Structure Box" on the page.
		+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
		+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
		+	or leave the SCENE parameter empty for the default display.
		+	-->
		+	{{STRUCTURE_3iba\| PDB=3iba \| SCENE= }}

-	~~Authors: Amzel~~, ~~L.M., Huang, C.H., Gabelli, S.B., Oldfield, E.~~	+	===Crystal structure of the complex of Trypanosoma cruzi farnesyl diphosphate synthase with zoledronate, IPP and Mg2+===

-	Description: Crystal structure of the complex of Trypanosoma cruzi farnesyl diphosphate synthase with zoledronate, IPP and Mg2+

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Thu Sep 3 15~~:20:~~34 2009~~''	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_19876942}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 19876942 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_19876942}}
		+
		+	==About this Structure==
		+	3IBA is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Trypanosoma_cruzi Trypanosoma cruzi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IBA OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:19876942</ref><references group="xtra"/>
		+	[[Category: Geranyltranstransferase]]
		+	[[Category: Trypanosoma cruzi]]
		+	[[Category: Amzel, L M.]]
		+	[[Category: Gabelli, S B.]]
		+	[[Category: Huang, C H.]]
		+	[[Category: Oldfield, E.]]
		+	[[Category: Bisphosphonate]]
		+	[[Category: Chagas disease]]
		+	[[Category: Fpp]]
		+	[[Category: Isopentenyl pyrophosphate]]
		+	[[Category: Isoprene biosynthesis]]
		+	[[Category: Transferase]]
		+	[[Category: Trypanosoma cruzi]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 10 17:29:08 2010''