3k4y: Difference between revisions

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{{STRUCTURE_3k4y|  PDB=3k4y  |  SCENE=  }}
===Crystal Structure of Isopentenyl Phosphate Kinase from M. jannaschii in complex with IPP===
{{ABSTRACT_PUBMED_20392112}}


==About this Structure==
==Crystal Structure of Isopentenyl Phosphate Kinase from M. jannaschii in complex with IPP==
[[3k4y]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K4Y OCA].  
<StructureSection load='3k4y' size='340' side='right'caption='[[3k4y]], [[Resolution|resolution]] 2.54&Aring;' scene=''>
 
== Structural highlights ==
==Reference==
<table><tr><td colspan='2'>[[3k4y]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K4Y OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3K4Y FirstGlance]. <br>
<ref group="xtra">PMID:020392112</ref><references group="xtra"/><references/>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.54&#8491;</td></tr>
[[Category: Methanocaldococcus jannaschii]]
<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=SO4:SULFATE+ION'>SO4</scene></td></tr>
[[Category: Dellas, N.]]
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3k4y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k4y OCA], [https://pdbe.org/3k4y PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3k4y RCSB], [https://www.ebi.ac.uk/pdbsum/3k4y PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3k4y ProSAT]</span></td></tr>
[[Category: Noel, J P.]]
</table>
[[Category: Archaea]]
== Function ==
[[Category: Atp-binding]]
[https://www.uniprot.org/uniprot/IPK_METJA IPK_METJA] Catalyzes the formation of isopentenyl diphosphate (IPP), the building block of all isoprenoids. Has no activity with farnesyl phosphate.<ref>PMID:16621811</ref> <ref>PMID:20392112</ref>
[[Category: Isopentenyl diphosphate]]
== Evolutionary Conservation ==
[[Category: Isopentenyl monophosphate]]
[[Image:Consurf_key_small.gif|200px|right]]
[[Category: Isoprenoid biosynthesis]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/k4/3k4y_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=3k4y ConSurf].
<div style="clear:both"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Methanocaldococcus jannaschii]]
[[Category: Methanocaldococcus jannaschii]]
[[Category: Mevalonate pathway]]
[[Category: Dellas N]]
[[Category: Small molecule kinase]]
[[Category: Noel JP]]
[[Category: Transferase]]

Latest revision as of 13:15, 21 February 2024

Crystal Structure of Isopentenyl Phosphate Kinase from M. jannaschii in complex with IPPCrystal Structure of Isopentenyl Phosphate Kinase from M. jannaschii in complex with IPP

Structural highlights

3k4y is a 2 chain structure with sequence from Methanocaldococcus jannaschii. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.54Å
Ligands:,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

IPK_METJA Catalyzes the formation of isopentenyl diphosphate (IPP), the building block of all isoprenoids. Has no activity with farnesyl phosphate.[1] [2]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

References

  1. ↑ Grochowski LL, Xu H, White RH. Methanocaldococcus jannaschii uses a modified mevalonate pathway for biosynthesis of isopentenyl diphosphate. J Bacteriol. 2006 May;188(9):3192-8. PMID:16621811 doi:http://dx.doi.org/10.1128/JB.188.9.3192-3198.2006
  2. ↑ Dellas N, Noel JP. Mutation of Archaeal Isopentenyl Phosphate Kinase Highlights Mechanism and Guides Phosphorylation of Additional Isoprenoid Monophosphates. ACS Chem Biol. 2010 Apr 14. PMID:20392112 doi:10.1021/cb1000313

3k4y, resolution 2.54Å

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