2q4t: Difference between revisions
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<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=2q4t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2q4t OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2q4t RCSB], [http://www.ebi.ac.uk/pdbsum/2q4t PDBsum]</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=2q4t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2q4t OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2q4t RCSB], [http://www.ebi.ac.uk/pdbsum/2q4t PDBsum]</span></td></tr> | ||
</table> | </table> | ||
== Function == | |||
[[http://www.uniprot.org/uniprot/5NT3_MOUSE 5NT3_MOUSE]] Can act both as nucleotidase and as phosphotransferase (By similarity). | |||
== Evolutionary Conservation == | == Evolutionary Conservation == | ||
[[Image:Consurf_key_small.gif|200px|right]] | [[Image:Consurf_key_small.gif|200px|right]] | ||
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[[Category: 5'-nucleotidase]] | [[Category: 5'-nucleotidase]] | ||
[[Category: Mus musculus]] | [[Category: Mus musculus]] | ||
[[Category: | [[Category: Structural genomic]] | ||
[[Category: Kondrashov, D A | [[Category: Kondrashov, D A]] | ||
[[Category: Levin, E J | [[Category: Levin, E J]] | ||
[[Category: Phillips, G N | [[Category: Phillips, G N]] | ||
[[Category: Wesenberg, G E | [[Category: Wesenberg, G E]] | ||
[[Category: Aah38029]] | [[Category: Aah38029]] | ||
[[Category: Bc038029]] | [[Category: Bc038029]] | ||
[[Category: Cesg]] | [[Category: Cesg]] | ||
[[Category: Cytosolic 5'-nucleotidase iii]] | [[Category: Cytosolic 5'-nucleotidase iii]] | ||
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[[Category: Mm 158936]] | [[Category: Mm 158936]] | ||
[[Category: Nt5c3 protein]] | [[Category: Nt5c3 protein]] | ||
[[Category: Protein structure initiative | [[Category: PSI, Protein structure initiative]] | ||
[[Category: Refinement methodology development]] | [[Category: Refinement methodology development]] | ||
[[Category: Umph-1]] | [[Category: Umph-1]] | ||
Revision as of 22:20, 25 December 2014
Ensemble refinement of the protein crystal structure of a cytosolic 5'-nucleotidase III from Mus musculus Mm.158936Ensemble refinement of the protein crystal structure of a cytosolic 5'-nucleotidase III from Mus musculus Mm.158936
Structural highlights
Function[5NT3_MOUSE] Can act both as nucleotidase and as phosphotransferase (By similarity). 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 PubMedX-ray crystallography typically uses a single set of coordinates and B factors to describe macromolecular conformations. Refinement of multiple copies of the entire structure has been previously used in specific cases as an alternative means of representing structural flexibility. Here, we systematically validate this method by using simulated diffraction data, and we find that ensemble refinement produces better representations of the distributions of atomic positions in the simulated structures than single-conformer refinements. Comparison of principal components calculated from the refined ensembles and simulations shows that concerted motions are captured locally, but that correlations dissipate over long distances. Ensemble refinement is also used on 50 experimental structures of varying resolution and leads to decreases in R(free) values, implying that improvements in the representation of flexibility observed for the simulated structures may apply to real structures. These gains are essentially independent of resolution or data-to-parameter ratio, suggesting that even structures at moderate resolution can benefit from ensemble refinement. Ensemble refinement of protein crystal structures: validation and application.,Levin EJ, Kondrashov DA, Wesenberg GE, Phillips GN Jr Structure. 2007 Sep;15(9):1040-52. PMID:17850744[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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