4o8u
From Proteopedia
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==Structure of PF2046== | ==Structure of PF2046== | ||
| - | <StructureSection load='4o8u' size='340' side='right' caption='[[4o8u]], [[Resolution|resolution]] 2. | + | <StructureSection load='4o8u' size='340' side='right'caption='[[4o8u]], [[Resolution|resolution]] 2.35Å' scene=''> |
== Structural highlights == | == Structural highlights == | ||
| - | [[4o8u]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O8U OCA]. <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> |
| - | <b>[[ | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.345Å</td></tr> |
| - | <b> | + | <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> |
| - | <b>Resources:</b> <span class='plainlinks'>[ | + | <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> |
| + | </table> | ||
| + | == Function == | ||
| + | [https://www.uniprot.org/uniprot/Q8TZE9_PYRFU Q8TZE9_PYRFU] | ||
| + | <div style="background-color:#fffaf0;"> | ||
== Publication Abstract from PubMed == | == 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. | 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. | ||
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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<ref>PMID:21203960</ref> | 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<ref>PMID:21203960</ref> | ||
| - | From | + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> |
| + | </div> | ||
| + | <div class="pdbe-citations 4o8u" style="background-color:#fffaf0;"></div> | ||
== References == | == References == | ||
<references/> | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
| - | [[Category: | + | [[Category: Large Structures]] |
| - | [[Category: | + | [[Category: Pyrococcus furiosus DSM 3638]] |
| - | [[Category: | + | [[Category: Liu Z-J]] |
| - | [[Category: | + | [[Category: Su J]] |
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Current revision
Structure of PF2046
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