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1njr

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(New page: 200px<br /><applet load="1njr" size="450" color="white" frame="true" align="right" spinBox="true" caption="1njr, resolution 1.9&Aring;" /> '''Crystal structure of ...)
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[[Image:1njr.gif|left|200px]]<br /><applet load="1njr" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1njr, resolution 1.9&Aring;" />
 
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'''Crystal structure of yeast ymx7, an ADP-ribose-1''-monophosphatase'''<br />
 
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==Overview==
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==Crystal structure of yeast ymx7, an ADP-ribose-1''-monophosphatase==
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Appr-1''-pase, an important and ubiquitous cellular processing enzyme, involved in the tRNA splicing pathway, catalyzes the conversion of, ADP-ribose-1''monophosphate (Appr-1''-p) to ADP-ribose. The structures of, the native enzyme from the yeast and its complex with ADP-ribose were, determined to 1.9 A and 2.05 A, respectively. Analysis of the, three-dimensional structure of this protein, selected as a target in a, structural genomics project, reveals its putative function and provides, clues to the catalytic mechanism. The structure of the 284-amino acid, protein shows a two-domain architecture consisting of a three-layer, alphabetaalpha sandwich N-terminal domain connected to a small C-terminal, helical domain. The structure of Appr-1''-pase in complex with the, product, ADP-ribose, reveals an active-site water molecule poised for, nucleophilic attack on the terminal phosphate group. Loop-region residues, Asn 80, Asp 90, and His 145 may form a catalytic triad.
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<StructureSection load='1njr' size='340' side='right'caption='[[1njr]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
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== Structural highlights ==
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==About this Structure==
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<table><tr><td colspan='2'>[[1njr]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NJR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1NJR FirstGlance]. <br>
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1NJR is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae] with XYL as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1NJR 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]] 1.9&#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=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=XYL:D-XYLITOL'>XYL</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=1njr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1njr OCA], [https://pdbe.org/1njr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1njr RCSB], [https://www.ebi.ac.uk/pdbsum/1njr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1njr ProSAT], [https://www.topsan.org/Proteins/NYSGXRC/1njr TOPSAN]</span></td></tr>
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Structure and mechanism of ADP-ribose-1''-monophosphatase (Appr-1''-pase), a ubiquitous cellular processing enzyme., Kumaran D, Eswaramoorthy S, Studier FW, Swaminathan S, Protein Sci. 2005 Mar;14(3):719-26. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15722447 15722447]
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/YMX7_YEAST YMX7_YEAST] Highly specific phosphatase involved in the metabolism of ADP-ribose 1''-phosphate (Appr1p) which is produced as a consequence of tRNA splicing. + phosphate.
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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/nj/1njr_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=1njr ConSurf].
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<div style="clear:both"></div>
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__TOC__
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</StructureSection>
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[[Category: Large Structures]]
[[Category: Saccharomyces cerevisiae]]
[[Category: Saccharomyces cerevisiae]]
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[[Category: Single protein]]
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[[Category: Burley SK]]
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[[Category: Burley, S.K.]]
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[[Category: Eswaramoorthy S]]
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[[Category: Eswaramoorthy, S.]]
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[[Category: Kumaran D]]
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[[Category: Kumaran, D.]]
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[[Category: Studier FW]]
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[[Category: NYSGXRC, New.York.Structural.GenomiX.Research.Consortium.]]
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[[Category: Swaminathan S]]
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[[Category: Studier, F.W.]]
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[[Category: Swaminathan, S.]]
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[[Category: XYL]]
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[[Category: dimer]]
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[[Category: new york structural genomix research consortium]]
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[[Category: nysgxrc]]
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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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[[Category: two domain organization]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 22:19:37 2007''
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Current revision

Crystal structure of yeast ymx7, an ADP-ribose-1-monophosphatase

PDB ID 1njr

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