1s3n: Difference between revisions
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== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[1s3n]] 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=1S3N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1S3N FirstGlance]. <br> | <table><tr><td colspan='2'>[[1s3n]] 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=1S3N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1S3N FirstGlance]. <br> | ||
</td></tr><tr><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>< | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr> | ||
<tr><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1s3m|1s3m]]</td></tr> | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1s3m|1s3m]]</td></tr> | ||
<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1s3n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s3n OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1s3n RCSB], [http://www.ebi.ac.uk/pdbsum/1s3n PDBsum], [http://www.topsan.org/Proteins/BSGC/1s3n TOPSAN]</span></td></tr> | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1s3n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s3n OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1s3n RCSB], [http://www.ebi.ac.uk/pdbsum/1s3n PDBsum], [http://www.topsan.org/Proteins/BSGC/1s3n TOPSAN]</span></td></tr> | ||
<table> | </table> | ||
== Evolutionary Conservation == | == Evolutionary Conservation == | ||
[[Image:Consurf_key_small.gif|200px|right]] | [[Image:Consurf_key_small.gif|200px|right]] | ||
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</StructureSection> | </StructureSection> | ||
[[Category: Methanocaldococcus jannaschii]] | [[Category: Methanocaldococcus jannaschii]] | ||
[[Category: | [[Category: Structural genomic]] | ||
[[Category: Busso, D | [[Category: Busso, D]] | ||
[[Category: Chen, S | [[Category: Chen, S]] | ||
[[Category: Jancrick, J | [[Category: Jancrick, J]] | ||
[[Category: Kim, R | [[Category: Kim, R]] | ||
[[Category: Kim, S H | [[Category: Kim, S H]] | ||
[[Category: Kuznetsova, E | [[Category: Kuznetsova, E]] | ||
[[Category: Proudfoot, M | [[Category: Proudfoot, M]] | ||
[[Category: Yakunin, A F | [[Category: Yakunin, A F]] | ||
[[Category: Bsgc structure funded by nih]] | [[Category: Bsgc structure funded by nih]] | ||
[[Category: Di-metal-binding]] | [[Category: Di-metal-binding]] | ||
[[Category: Phosphodiesterase]] | [[Category: Phosphodiesterase]] | ||
[[Category: Phosphodiesterase/nuclease]] | [[Category: Phosphodiesterase/nuclease]] | ||
[[Category: Protein structure initiative | [[Category: PSI, Protein structure initiative]] | ||
Revision as of 09:44, 6 January 2015
Structural and Functional Characterization of a Novel Archaeal PhosphodiesteraseStructural and Functional Characterization of a Novel Archaeal Phosphodiesterase
Structural highlights
Evolutionary Conservation Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf. Publication Abstract from PubMedMethanococcus jannaschii MJ0936 is a hypothetical protein of unknown function with over 50 homologs found in many bacteria and Archaea. To help define the molecular (biochemical and biophysical) function of MJ0936, we determined its crystal structure at 2.4-A resolution and performed a series of biochemical screens for catalytic activity. The overall fold of this single domain protein consists of a four-layered structure formed by two beta-sheets flanked by alpha-helices on both sides. The crystal structure suggested its biochemical function to be a nuclease, phosphatase, or nucleotidase, with a requirement for some metal ions. Crystallization in the presence of Ni(2+) or Mn(2+) produced a protein containing a binuclear metal center in the putative active site formed by a cluster of conserved residues. Analysis of MJ0936 against a panel of general enzymatic assays revealed catalytic activity toward bis-p-nitrophenyl phosphate, an indicator substrate for phosphodiesterases and nucleases. Significant activity was also found with two other phosphodiesterase substrates, thymidine 5'-monophosphate p-nitrophenyl ester and p-nitrophenylphosphorylcholine, but no activity was found for cAMP or cGMP. Phosphodiesterase activity of MJ0936 had an absolute requirement for divalent metal ions with Ni(2+) and Mn(2+) being most effective. Thus, our structural and enzymatic studies have identified the biochemical function of MJ0936 as that of a novel phosphodiesterase. Structural and functional characterization of a novel phosphodiesterase from Methanococcus jannaschii.,Chen S, Yakunin AF, Kuznetsova E, Busso D, Pufan R, Proudfoot M, Kim R, Kim SH J Biol Chem. 2004 Jul 23;279(30):31854-62. Epub 2004 May 5. PMID:15128743[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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