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| | ==Structure of PF2046== | | ==Structure of PF2046== |
| - | <StructureSection load='4o8u' size='340' side='right' caption='[[4o8u]], [[Resolution|resolution]] 2.34Å' scene=''> | + | <StructureSection load='4o8u' size='340' side='right'caption='[[4o8u]], [[Resolution|resolution]] 2.34Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[4o8u]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrfu Pyrfu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O8U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4O8U FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[4o8u]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_furiosus_DSM_3638 Pyrococcus furiosus DSM 3638]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O8U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4O8U FirstGlance]. <br> |
| - | </td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr> | + | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PF2046 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=186497 PYRFU])</td></tr>
| + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4o8u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o8u OCA], [https://pdbe.org/4o8u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4o8u RCSB], [https://www.ebi.ac.uk/pdbsum/4o8u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4o8u ProSAT]</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=4o8u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o8u OCA], [http://pdbe.org/4o8u PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4o8u RCSB], [http://www.ebi.ac.uk/pdbsum/4o8u PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4o8u ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/Q8TZE9_PYRFU Q8TZE9_PYRFU] |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Pyrfu]] | + | [[Category: Large Structures]] |
| - | [[Category: Liu, Z J]] | + | [[Category: Pyrococcus furiosus DSM 3638]] |
| - | [[Category: Su, J]] | + | [[Category: Liu Z-J]] |
| - | [[Category: B-factorsharpening]] | + | [[Category: Su J]] |
| - | [[Category: Homodimer of trimer]]
| + | |
| - | [[Category: Low resolution diffraction]]
| + | |
| - | [[Category: Pf2046]]
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| - | [[Category: Unknown function]]
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| Structural highlights
Function
Q8TZE9_PYRFU
Publication Abstract from PubMed
Sometimes crystals cannot diffract X-rays beyond 3.0 A resolution due to the intrinsic flexibility associated with the protein. Low resolution diffraction data not only pose a challenge to structure determination, but also hamper interpretation of mechanistic details. Crystals of a 25.6 kDa non-Pfam, hypothetical protein, PF2046, diffracted X-rays to 3.38 A resolution. A combination of Se-Met derived heavy atom positions with multiple cycles of B-factor sharpening, multi-crystal averaging, restrained refinement followed by manual inspection of electron density and model building resulted in a final model with a R value of 23.5 (R(free)= 24.7). The asymmetric unit was large and consisted of six molecules arranged as a homodimer of trimers. Analysis of the structure revealed the presence of a RNA binding domain suggesting a role for PF2046 in the processing of nucleic acids.
Crystal structure of a novel non-Pfam protein PF2046 solved using low resolution B-factor sharpening and multi-crystal averaging methods.,Su J, Li Y, Shaw N, Zhou W, Zhang M, Xu H, Wang BC, Liu ZJ Protein Cell. 2010 May;1(5):453-8. doi: 10.1007/s13238-010-0045-7. Epub 2010 Jun , 4. PMID:21203960[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Su J, Li Y, Shaw N, Zhou W, Zhang M, Xu H, Wang BC, Liu ZJ. Crystal structure of a novel non-Pfam protein PF2046 solved using low resolution B-factor sharpening and multi-crystal averaging methods. Protein Cell. 2010 May;1(5):453-8. doi: 10.1007/s13238-010-0045-7. Epub 2010 Jun , 4. PMID:21203960 doi:http://dx.doi.org/10.1007/s13238-010-0045-7
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