2vnq

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[[Image:2vnq.jpg|left|200px]]
 
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{{Structure
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==Monoclinic form of IDI-1==
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|PDB= 2vnq |SIZE=350|CAPTION= <scene name='initialview01'>2vnq</scene>, resolution 2.20&Aring;
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<StructureSection load='2vnq' size='340' side='right'caption='[[2vnq]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
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|SITE= <scene name='pdbsite=AC1:Binding+Site+For+Residue+Mn+A+201'>AC1</scene>, <scene name='pdbsite=AC2:Binding+Site+For+Residue+Imd+A+301'>AC2</scene>, <scene name='pdbsite=AC3:Binding+Site+For+Residue+So4+A+401'>AC3</scene>, <scene name='pdbsite=AC4:Binding+Site+For+Residue+Mn+B+201'>AC4</scene>, <scene name='pdbsite=AC5:Binding+Site+For+Residue+Imd+B+301'>AC5</scene> and <scene name='pdbsite=AC6:Binding+Site+For+Residue+So4+B+401'>AC6</scene>
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== Structural highlights ==
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|LIGAND= <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>
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<table><tr><td colspan='2'>[[2vnq]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_BL21 Escherichia coli BL21]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2vej 2vej]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VNQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VNQ FirstGlance]. <br>
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|ACTIVITY= <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>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.2&#8491;</td></tr>
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|GENE=
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
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|DOMAIN=<span class='plainlinks'>[http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PRK03759 PRK03759], [http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=cd02885 IPP_Isomerase]</span>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2vnq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vnq OCA], [https://pdbe.org/2vnq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vnq RCSB], [https://www.ebi.ac.uk/pdbsum/2vnq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vnq ProSAT]</span></td></tr>
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|RELATEDENTRY=[[1nfs|1NFS]], [[1q54|1Q54]], [[1ppv|1PPV]], [[1ow2|1OW2]], [[1ppw|1PPW]], [[1x84|1X84]], [[1i9a|1I9A]], [[1nfz|1NFZ]], [[1r67|1R67]], [[1x83|1X83]], [[1hx3|1HX3]], [[1hzt|1HZT]], [[1pvf|1PVF]], [[2vnp|2VNP]]
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</table>
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2vnq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vnq OCA], [http://www.ebi.ac.uk/pdbsum/2vnq PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2vnq RCSB]</span>
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== Function ==
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}}
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[https://www.uniprot.org/uniprot/IDI_ECOLI IDI_ECOLI] Catalyzes the 1,3-allylic rearrangement of the homoallylic substrate isopentenyl (IPP) to its highly electrophilic allylic isomer, dimethylallyl diphosphate (DMAPP).<ref>PMID:10099534</ref> <ref>PMID:9603997</ref>
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/vn/2vnq_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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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=2vnq ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Type 1 isopentenyl diphosphate isomerase (IDI-1) has been crystallized in a new crystal form. After data collection from small thin needle-shaped crystals, a new monoclinic form of the studied protein was identified. In this article, the three crystal forms of IDI-1 (orthorhombic, monoclinic and trigonal) are compared.
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'''MONOCLINIC FORM OF IDI-1'''
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Monoclinic form of isopentenyl diphosphate isomerase: a case of polymorphism in biomolecular crystals.,de Ruyck J, Oudjama Y, Wouters J Acta Crystallogr Sect F Struct Biol Cryst Commun. 2008 Apr 1;64(Pt, 4):239-42. Epub 2008 Mar 21. PMID:18391416<ref>PMID:18391416</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 2vnq" style="background-color:#fffaf0;"></div>
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==About this Structure==
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==See Also==
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2VNQ is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. This structure supersedes the now removed PDB entry 2VEJ. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VNQ OCA].
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*[[Isopentenyl-diphosphate delta-isomerase|Isopentenyl-diphosphate delta-isomerase]]
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[[Category: Escherichia coli]]
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== References ==
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[[Category: Isopentenyl-diphosphate Delta-isomerase]]
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<references/>
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[[Category: Single protein]]
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__TOC__
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[[Category: Oudjama, Y.]]
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</StructureSection>
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[[Category: Ruyck, J De.]]
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[[Category: Escherichia coli BL21]]
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[[Category: Wouters, J.]]
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[[Category: Large Structures]]
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[[Category: cytoplasm]]
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[[Category: Oudjama Y]]
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[[Category: ipp isomerase]]
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[[Category: Wouters J]]
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[[Category: isomerase]]
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[[Category: De Ruyck J]]
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[[Category: isoprene biosynthesis]]
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[[Category: magnesium]]
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[[Category: manganese]]
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[[Category: metal-binding]]
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[[Category: polymorphism]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Apr 2 11:32:29 2008''
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Current revision

Monoclinic form of IDI-1

PDB ID 2vnq

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