2vnp: Difference between revisions

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[[Image:2vnp.jpg|left|200px]]
<!--
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{{STRUCTURE_2vnp|  PDB=2vnp  |  SCENE=  }}
'''MONOCLINIC FORM OF IDI-1'''


==Monoclinic form of IDI-1==
<StructureSection load='2vnp' size='340' side='right'caption='[[2vnp]], [[Resolution|resolution]] 2.19&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[2vnp]] 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=2veh 2veh]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VNP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VNP FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.19&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DED:2-DIMETHYLAMINO-ETHYL-DIPHOSPHATE'>DED</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</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=2vnp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vnp OCA], [https://pdbe.org/2vnp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vnp RCSB], [https://www.ebi.ac.uk/pdbsum/2vnp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vnp ProSAT]</span></td></tr>
</table>
== Function ==
[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>
== 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/vn/2vnp_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/main_output.php?pdb_ID=2vnp ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
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.


==Overview==
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>
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.


==About this Structure==
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
2VNP 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 [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2veh 2veh]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VNP OCA].
</div>
<div class="pdbe-citations 2vnp" style="background-color:#fffaf0;"></div>


==Reference==
==See Also==
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:[http://www.ncbi.nlm.nih.gov/pubmed/18391416 18391416]
*[[Isopentenyl-diphosphate delta-isomerase|Isopentenyl-diphosphate delta-isomerase]]
[[Category: Escherichia coli]]
== References ==
[[Category: Isopentenyl-diphosphate Delta-isomerase]]
<references/>
[[Category: Single protein]]
__TOC__
[[Category: Oudjama, Y.]]
</StructureSection>
[[Category: Ruyck, J De.]]
[[Category: Escherichia coli BL21]]
[[Category: Wouters, J.]]
[[Category: Large Structures]]
[[Category: Cytoplasm]]
[[Category: Oudjama Y]]
[[Category: Ipp isomerase]]
[[Category: Wouters J]]
[[Category: Isomerase]]
[[Category: De Ruyck J]]
[[Category: Isoprene biosynthesis]]
[[Category: Magnesium]]
[[Category: Manganese]]
[[Category: Metal-binding]]
[[Category: Polymorphism]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed May  7 08:53:28 2008''

Latest revision as of 15:26, 13 December 2023

Monoclinic form of IDI-1

2vnp, resolution 2.19Å

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