4n02 - Revision history

OCA at 12:30, 1 March 2024

OCA — Fri, 01 Mar 2024 12:30:30 GMT

←Older revision		Revision as of 12:30, 1 March 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4n02]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptococcus_pneumoniae_CGSP14 Streptococcus pneumoniae CGSP14]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4N02 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4N02 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4n02]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptococcus_pneumoniae_CGSP14 Streptococcus pneumoniae CGSP14]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4N02 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4N02 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FNR:1-DEOXY-1-(7,8-DIMETHYL-2,4-DIOXO-3,4-DIHYDRO-2H-BENZO[G]PTERIDIN-1-ID-10(5H)-YL)-5-O-PHOSPHONATO-D-RIBITOL'>FNR</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]] 1.4Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FNR:1-DEOXY-1-(7,8-DIMETHYL-2,4-DIOXO-3,4-DIHYDRO-2H-BENZO[G]PTERIDIN-1-ID-10(5H)-YL)-5-O-PHOSPHONATO-D-RIBITOL'>FNR</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'>[https://proteopedia.org/fgij/fg.htm?mol=4n02 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4n02 OCA], [https://pdbe.org/4n02 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4n02 RCSB], [https://www.ebi.ac.uk/pdbsum/4n02 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4n02 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=4n02 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4n02 OCA], [https://pdbe.org/4n02 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4n02 RCSB], [https://www.ebi.ac.uk/pdbsum/4n02 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4n02 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/IDI2_STRPS IDI2_STRPS] Catalyzes the 1,3-allylic rearrangement of the homoallylic substrate isopentenyl (IPP) to its allylic isomer, dimethylallyl diphosphate (DMAPP) (By similarity).		[https://www.uniprot.org/uniprot/IDI2_STRPS IDI2_STRPS] Catalyzes the 1,3-allylic rearrangement of the homoallylic substrate isopentenyl (IPP) to its allylic isomer, dimethylallyl diphosphate (DMAPP) (By similarity).
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Isopentenyl diphosphate isomerase (IDI) is a key enzyme in the isoprenoid biosynthetic pathway and is required for all organisms that synthesize isoprenoid metabolites from mevalonate. Type 1 IDI (IDI-1) is a metalloprotein that is found in eukaryotes, whereas the type 2 isoform (IDI-2) is a flavoenzyme found in bacteria that is completely absent from human. IDI-2 from the pathogenic bacterium Streptococcus pneumoniae was recombinantly expressed in Escherichia coli. Steady-state kinetic studies of the enzyme indicated that FMNH2 (KM =0.3 muM) bound before isopentenyl diphosphate (KM =40 muM) in an ordered binding mechanism. An X-ray crystal structure at 1.4 A resolution was obtained for the holoenzyme in the closed conformation with a reduced flavin cofactor and two sulfate ions in the active site. These results helped to further approach the enzymatic mechanism of IDI-2 and, thus, open new possibilities for the rational design of antibacterial compounds against sequence-similar and structure-related pathogens such as Enterococcus faecalis or Staphylococcus aureus.
-
-	Determination of Kinetics and the Crystal Structure of a Novel Type 2 Isopentenyl Diphosphate: Dimethylallyl Diphosphate Isomerase from Streptococcus pneumoniae.,de Ruyck J, Janczak MW, Neti SS, Rothman SC, Schubert HL, Cornish RM, Matagne A, Wouters J, Poulter CD Chembiochem. 2014 Jul 7;15(10):1452-8. doi: 10.1002/cbic.201402046. Epub 2014 Jun, 6. PMID:24910111<ref>PMID:24910111</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 4n02" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Isopentenyl-diphosphate delta-isomerase\|Isopentenyl-diphosphate delta-isomerase]]		*[[Isopentenyl-diphosphate delta-isomerase\|Isopentenyl-diphosphate delta-isomerase]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 10:22, 28 December 2022

OCA — Wed, 28 Dec 2022 10:22:52 GMT

←Older revision		Revision as of 10:22, 28 December 2022
Line 3:		Line 3:
	<StructureSection load='4n02' size='340' side='right'caption='[[4n02]], [[Resolution\|resolution]] 1.40Å' scene=''>		<StructureSection load='4n02' size='340' side='right'caption='[[4n02]], [[Resolution\|resolution]] 1.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4n02]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Streptococcus_pneumoniae~~ Streptococcus pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4N02 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4N02 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4n02]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptococcus_pneumoniae_CGSP14 Streptococcus pneumoniae CGSP14]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4N02 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4N02 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FNR:1-DEOXY-1-(7,8-DIMETHYL-2,4-DIOXO-3,4-DIHYDRO-2H-BENZO[G]PTERIDIN-1-ID-10(5H)-YL)-5-O-PHOSPHONATO-D-RIBITOL'>FNR</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=FNR:1-DEOXY-1-(7,8-DIMETHYL-2,4-DIOXO-3,4-DIHYDRO-2H-BENZO[G]PTERIDIN-1-ID-10(5H)-YL)-5-O-PHOSPHONATO-D-RIBITOL'>FNR</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Isopentenyl-diphosphate_Delta-isomerase Isopentenyl-diphosphate Delta-isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.3.2 5.3.3.2] </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=4n02 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4n02 OCA], [https://pdbe.org/4n02 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4n02 RCSB], [https://www.ebi.ac.uk/pdbsum/4n02 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4n02 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=4n02 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4n02 OCA], [~~http~~://pdbe.org/4n02 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4n02 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4n02 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4n02 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/IDI2_STRPS IDI2_STRPS]] Catalyzes the 1,3-allylic rearrangement of the homoallylic substrate isopentenyl (IPP) to its allylic isomer, dimethylallyl diphosphate (DMAPP) (By similarity).	+	[https://www.uniprot.org/uniprot/IDI2_STRPS IDI2_STRPS] Catalyzes the 1,3-allylic rearrangement of the homoallylic substrate isopentenyl (IPP) to its allylic isomer, dimethylallyl diphosphate (DMAPP) (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 26:		Line 25:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Isopentenyl-diphosphate Delta-isomerase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Streptococcus pneumoniae]]	+	[[Category: Streptococcus pneumoniae CGSP14]]
-	[[Category: Poulter~~, C D]]~~	+	[[Category: Poulter CD]]
-	~~[[Category: Ruyck, J de~~]]	+	[[Category: Schubert HL]]
-	[[Category: Schubert~~, H L~~]]	+	[[Category: De Ruyck J]]
-	[[Category: ~~Isomerase]]~~	+
-	~~[[Category: Tim barrel~~]]	+

OCA at 08:38, 10 April 2019

OCA — Wed, 10 Apr 2019 08:38:57 GMT

←Older revision		Revision as of 08:38, 10 April 2019
Line 1:		Line 1:

	==Type 2 IDI from S. pneumoniae==		==Type 2 IDI from S. pneumoniae==
-	<StructureSection load='4n02' size='340' side='right' caption='[[4n02]], [[Resolution\|resolution]] 1.40Å' scene=''>	+	<StructureSection load='4n02' size='340' side='right'caption='[[4n02]], [[Resolution\|resolution]] 1.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4n02]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptococcus_pneumoniae Streptococcus pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4N02 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4N02 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4n02]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptococcus_pneumoniae Streptococcus pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4N02 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4N02 FirstGlance]. <br>
Line 27:		Line 27:
	</StructureSection>		</StructureSection>
	[[Category: Isopentenyl-diphosphate Delta-isomerase]]		[[Category: Isopentenyl-diphosphate Delta-isomerase]]
		+	[[Category: Large Structures]]
	[[Category: Streptococcus pneumoniae]]		[[Category: Streptococcus pneumoniae]]
	[[Category: Poulter, C D]]		[[Category: Poulter, C D]]

OCA at 22:53, 5 August 2016

OCA — Fri, 05 Aug 2016 22:53:27 GMT

←Older revision		Revision as of 22:53, 5 August 2016
Line 1:		Line 1:
		+
	==Type 2 IDI from S. pneumoniae==		==Type 2 IDI from S. pneumoniae==
	<StructureSection load='4n02' size='340' side='right' caption='[[4n02]], [[Resolution\|resolution]] 1.40Å' scene=''>		<StructureSection load='4n02' size='340' side='right' caption='[[4n02]], [[Resolution\|resolution]] 1.40Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FNR:1-DEOXY-1-(7,8-DIMETHYL-2,4-DIOXO-3,4-DIHYDRO-2H-BENZO[G]PTERIDIN-1-ID-10(5H)-YL)-5-O-PHOSPHONATO-D-RIBITOL'>FNR</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=FNR:1-DEOXY-1-(7,8-DIMETHYL-2,4-DIOXO-3,4-DIHYDRO-2H-BENZO[G]PTERIDIN-1-ID-10(5H)-YL)-5-O-PHOSPHONATO-D-RIBITOL'>FNR</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Isopentenyl-diphosphate_Delta-isomerase Isopentenyl-diphosphate Delta-isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.3.2 5.3.3.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Isopentenyl-diphosphate_Delta-isomerase Isopentenyl-diphosphate Delta-isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.3.2 5.3.3.2] </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=4n02 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4n02 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4n02 RCSB], [http://www.ebi.ac.uk/pdbsum/4n02 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=4n02 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4n02 OCA], [http://pdbe.org/4n02 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4n02 RCSB], [http://www.ebi.ac.uk/pdbsum/4n02 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4n02 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		Line 18:
	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 4n02" style="background-color:#fffaf0;"></div>

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

OCA at 06:33, 25 December 2014

OCA — Thu, 25 Dec 2014 06:33:37 GMT

←Older revision		Revision as of 06:33, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4n02]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptococcus_pneumoniae Streptococcus pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4N02 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4N02 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4n02]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptococcus_pneumoniae Streptococcus pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4N02 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4N02 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FNR:1-DEOXY-1-(7,8-DIMETHYL-2,4-DIOXO-3,4-DIHYDRO-2H-BENZO[G]PTERIDIN-1-ID-10(5H)-YL)-5-O-PHOSPHONATO-D-RIBITOL'>FNR</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=FNR:1-DEOXY-1-(7,8-DIMETHYL-2,4-DIOXO-3,4-DIHYDRO-2H-BENZO[G]PTERIDIN-1-ID-10(5H)-YL)-5-O-PHOSPHONATO-D-RIBITOL'>FNR</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Isopentenyl-diphosphate_Delta-isomerase Isopentenyl-diphosphate Delta-isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.3.2 5.3.3.2] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Isopentenyl-diphosphate_Delta-isomerase Isopentenyl-diphosphate Delta-isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.3.2 5.3.3.2] </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=4n02 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4n02 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4n02 RCSB], [http://www.ebi.ac.uk/pdbsum/4n02 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=4n02 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4n02 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4n02 RCSB], [http://www.ebi.ac.uk/pdbsum/4n02 PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/IDI2_STRPS IDI2_STRPS]] Catalyzes the 1,3-allylic rearrangement of the homoallylic substrate isopentenyl (IPP) to its allylic isomer, dimethylallyl diphosphate (DMAPP) (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 15:		Line 17:
	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>
		+
		+	==See Also==
		+	*[[Isopentenyl-diphosphate delta-isomerase\|Isopentenyl-diphosphate delta-isomerase]]
	== References ==		== References ==
	<references/>		<references/>
Line 21:		Line 26:
	[[Category: Isopentenyl-diphosphate Delta-isomerase]]		[[Category: Isopentenyl-diphosphate Delta-isomerase]]
	[[Category: Streptococcus pneumoniae]]		[[Category: Streptococcus pneumoniae]]
-	[[Category: Poulter, C D.]]	+	[[Category: Poulter, C D]]
-	[[Category: Ruyck, J de.]]	+	[[Category: Ruyck, J de]]
-	[[Category: Schubert, H L.]]	+	[[Category: Schubert, H L]]
	[[Category: Isomerase]]		[[Category: Isomerase]]
	[[Category: Tim barrel]]		[[Category: Tim barrel]]

OCA at 08:21, 2 July 2014

OCA — Wed, 02 Jul 2014 08:21:22 GMT

←Older revision		Revision as of 08:21, 2 July 2014
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Type 2 IDI from S. pneumoniae==
		+	<StructureSection load='4n02' size='340' side='right' caption='[[4n02]], [[Resolution\|resolution]] 1.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4n02]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptococcus_pneumoniae Streptococcus pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4N02 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4N02 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FNR:1-DEOXY-1-(7,8-DIMETHYL-2,4-DIOXO-3,4-DIHYDRO-2H-BENZO[G]PTERIDIN-1-ID-10(5H)-YL)-5-O-PHOSPHONATO-D-RIBITOL'>FNR</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Isopentenyl-diphosphate_Delta-isomerase Isopentenyl-diphosphate Delta-isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.3.2 5.3.3.2] </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=4n02 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4n02 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4n02 RCSB], [http://www.ebi.ac.uk/pdbsum/4n02 PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Isopentenyl diphosphate isomerase (IDI) is a key enzyme in the isoprenoid biosynthetic pathway and is required for all organisms that synthesize isoprenoid metabolites from mevalonate. Type 1 IDI (IDI-1) is a metalloprotein that is found in eukaryotes, whereas the type 2 isoform (IDI-2) is a flavoenzyme found in bacteria that is completely absent from human. IDI-2 from the pathogenic bacterium Streptococcus pneumoniae was recombinantly expressed in Escherichia coli. Steady-state kinetic studies of the enzyme indicated that FMNH2 (KM =0.3 muM) bound before isopentenyl diphosphate (KM =40 muM) in an ordered binding mechanism. An X-ray crystal structure at 1.4 A resolution was obtained for the holoenzyme in the closed conformation with a reduced flavin cofactor and two sulfate ions in the active site. These results helped to further approach the enzymatic mechanism of IDI-2 and, thus, open new possibilities for the rational design of antibacterial compounds against sequence-similar and structure-related pathogens such as Enterococcus faecalis or Staphylococcus aureus.

-	~~The entry 4n02 is ON HOLD~~	+	Determination of Kinetics and the Crystal Structure of a Novel Type 2 Isopentenyl Diphosphate: Dimethylallyl Diphosphate Isomerase from Streptococcus pneumoniae.,de Ruyck J, Janczak MW, Neti SS, Rothman SC, Schubert HL, Cornish RM, Matagne A, Wouters J, Poulter CD Chembiochem. 2014 Jul 7;15(10):1452-8. doi: 10.1002/cbic.201402046. Epub 2014 Jun, 6. PMID:24910111<ref>PMID:24910111</ref>

-	~~Authors: de Ruyck~~, J.~~, Schubert, H~~.L.~~, Hill, C.P.,~~ Poulter, C.D.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~Type 2 IDI from S~~. ~~pneumonia~~	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Isopentenyl-diphosphate Delta-isomerase]]
		+	[[Category: Streptococcus pneumoniae]]
		+	[[Category: Poulter, C D.]]
		+	[[Category: Ruyck, J de.]]
		+	[[Category: Schubert, H L.]]
		+	[[Category: Isomerase]]
		+	[[Category: Tim barrel]]

OCA at 07:30, 16 October 2013

OCA — Wed, 16 Oct 2013 07:30:36 GMT

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	The entry 4n02 is ON HOLD		The entry 4n02 is ON HOLD

-	Authors: de Ruyck, J., Schubert, H. L, Hill, C. P., Poulter, C. D.	+	Authors: de Ruyck, J., Schubert, H.L., Hill, C.P., Poulter, C.D.

	Description: Type 2 IDI from S. pneumonia		Description: Type 2 IDI from S. pneumonia

OCA: Protected "4n02" [edit=sysop:move=sysop]

OCA — Thu, 10 Oct 2013 05:52:22 GMT

Protected "4n02" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:52, 10 October 2013

OCA: New page: '''Unreleased structure''' The entry 4n02 is ON HOLD Authors: de Ruyck, J., Schubert, H. L, Hill, C. P., Poulter, C. D. Description: Type 2 IDI from S. pneumonia

OCA — Thu, 10 Oct 2013 05:52:21 GMT

New page: '''Unreleased structure''' The entry 4n02 is ON HOLD Authors: de Ruyck, J., Schubert, H. L, Hill, C. P., Poulter, C. D. Description: Type 2 IDI from S. pneumonia

New page

'''Unreleased structure'''

The entry 4n02 is ON HOLD

Authors: de Ruyck, J., Schubert, H. L, Hill, C. P., Poulter, C. D.

Description: Type 2 IDI from S. pneumonia