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2a3l

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(New page: 200px<br /><applet load="2a3l" size="450" color="white" frame="true" align="right" spinBox="true" caption="2a3l, resolution 3.34&Aring;" /> '''X-Ray Structure of A...)
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[[Image:2a3l.gif|left|200px]]<br /><applet load="2a3l" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="2a3l, resolution 3.34&Aring;" />
 
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'''X-Ray Structure of Adenosine 5'-Monophosphate Deaminase from Arabidopsis Thaliana in Complex with Coformycin 5'-Phosphate'''<br />
 
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==Overview==
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==X-Ray Structure of Adenosine 5'-Monophosphate Deaminase from Arabidopsis Thaliana in Complex with Coformycin 5'-Phosphate==
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Embryonic factor 1 (FAC1) is one of the earliest expressed plant genes and, encodes an AMP deaminase (AMPD), which is also an identified herbicide, target. This report identifies an N-terminal transmembrane domain in, Arabidopsis FAC1, explores subcellular fractionation, and presents a 3.3-A, globular catalytic domain x-ray crystal structure with a bound, herbicide-based transition state inhibitor that provides the first glimpse, of a complete AMPD active site. FAC1 contains an (alpha/beta)(8)-barrel, characterized by loops in place of strands 5 and 6 that places it in a, small subset of the amidohydrolase superfamily with imperfect folds., Unlike tetrameric animal orthologs, FAC1 is a dimer and each subunit, contains an exposed Walker A motif that may be involved in the dramatic, combined K(m) (25-80-fold lower) and V(max) (5-6-fold higher) activation, by ATP. Normal mode analysis predicts a hinge motion that flattens basic, surfaces on each monomer that flank the dimer interface, which suggests a, reversible association between the FAC1 globular catalytic domain and, intracellular membranes, with N-terminal transmembrane and disordered, linker regions serving as the anchor and attachment to the globular, catalytic domain, respectively.
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<StructureSection load='2a3l' size='340' side='right'caption='[[2a3l]], [[Resolution|resolution]] 3.34&Aring;' scene=''>
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== Structural highlights ==
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==About this Structure==
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<table><tr><td colspan='2'>[[2a3l]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2A3L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2A3L FirstGlance]. <br>
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2A3L is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana] with ZN, PO4 and CF5 as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=2A3L OCA].
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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]] 3.34&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CF5:COFORMYCIN+5-PHOSPHATE'>CF5</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
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==Reference==
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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=2a3l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2a3l OCA], [https://pdbe.org/2a3l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2a3l RCSB], [https://www.ebi.ac.uk/pdbsum/2a3l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2a3l ProSAT], [https://www.topsan.org/Proteins/CESG/2a3l TOPSAN]</span></td></tr>
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Membrane association, mechanism of action, and structure of Arabidopsis embryonic factor 1 (FAC1)., Han BW, Bingman CA, Mahnke DK, Bannen RM, Bednarek SY, Sabina RL, Phillips GN Jr, J Biol Chem. 2006 May 26;281(21):14939-47. Epub 2006 Mar 16. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16543243 16543243]
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/AMPD_ARATH AMPD_ARATH] AMP deaminase plays a critical role in energy metabolism. Essential for the transition from zygote to embryo.<ref>PMID:15918887</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/a3/2a3l_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=2a3l ConSurf].
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<div style="clear:both"></div>
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== References ==
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<references/>
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__TOC__
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</StructureSection>
[[Category: Arabidopsis thaliana]]
[[Category: Arabidopsis thaliana]]
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[[Category: Single protein]]
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[[Category: Large Structures]]
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[[Category: Allard, S.T.M.]]
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[[Category: Allard STM]]
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[[Category: Bingman, C.A.]]
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[[Category: Bingman CA]]
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[[Category: Bitto, E.]]
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[[Category: Bitto E]]
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[[Category: CESG, Center.for.Eukaryotic.Structural.Genomics.]]
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[[Category: Han BW]]
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[[Category: Han, B.W.]]
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[[Category: Phillips Jr GN]]
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[[Category: Jr., G.N.Phillips.]]
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[[Category: Wesenberg GE]]
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[[Category: Wesenberg, G.E.]]
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[[Category: CF5]]
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[[Category: PO4]]
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[[Category: ZN]]
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[[Category: adenosine 5'-monophosphate deaminase]]
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[[Category: at2g38280]]
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[[Category: atampd]]
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[[Category: center for eukaryotic structural genomics]]
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[[Category: cesg]]
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[[Category: coformycin 5'-phosphate]]
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[[Category: protein structure initiative]]
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[[Category: psi]]
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[[Category: structural genomics]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 07:53:48 2007''
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Current revision

X-Ray Structure of Adenosine 5'-Monophosphate Deaminase from Arabidopsis Thaliana in Complex with Coformycin 5'-Phosphate

PDB ID 2a3l

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