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| | <StructureSection load='6w7t' size='340' side='right'caption='[[6w7t]], [[Resolution|resolution]] 3.01Å' scene=''> | | <StructureSection load='6w7t' size='340' side='right'caption='[[6w7t]], [[Resolution|resolution]] 3.01Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[6w7t]] is a 9 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_aeruginosa_phage_pap3 Pseudomonas aeruginosa phage pap3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6W7T OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6W7T FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[6w7t]] is a 9 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_virus_PaP3 Pseudomonas virus PaP3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6W7T OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6W7T FirstGlance]. <br> |
| - | </td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3zqp|3zqp]]</div></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.01Å</td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">orf1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=188350 Pseudomonas aeruginosa phage PaP3])</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=6w7t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6w7t OCA], [https://pdbe.org/6w7t PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6w7t RCSB], [https://www.ebi.ac.uk/pdbsum/6w7t PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6w7t ProSAT]</span></td></tr> |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6w7t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6w7t OCA], [http://pdbe.org/6w7t PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6w7t RCSB], [http://www.ebi.ac.uk/pdbsum/6w7t PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6w7t ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/Q8H9R5_9CAUD Q8H9R5_9CAUD] |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | | | |
| | ==See Also== | | ==See Also== |
| - | *[[Terminase|Terminase]] | + | *[[Terminase 3D Structures|Terminase 3D Structures]] |
| | == References == | | == References == |
| | <references/> | | <references/> |
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| | </StructureSection> | | </StructureSection> |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Pseudomonas aeruginosa phage pap3]] | + | [[Category: Pseudomonas virus PaP3]] |
| - | [[Category: Cingolani, G]] | + | [[Category: Cingolani G]] |
| - | [[Category: Lokareddy, R]] | + | [[Category: Lokareddy R]] |
| - | [[Category: Dna binding protein]]
| + | |
| - | [[Category: Pseudomonas phage pap3]]
| + | |
| - | [[Category: Small terminase]]
| + | |
| - | [[Category: Viral genome packaging motor]]
| + | |
| - | [[Category: Viral protein]]
| + | |
| Structural highlights
Function
Q8H9R5_9CAUD
Publication Abstract from PubMed
The genome packaging motor of tailed bacteriophages and herpesviruses is a powerful nanomachine built by several copies of a large (TerL) and a small (TerS) terminase subunit. The motor assembles transiently at the portal vertex of an empty precursor capsid (or procapsid) to power genome encapsidation. Terminase subunits have been studied in-depth, especially in classical bacteriophages that infect Escherichia coli or Salmonella, yet, less is known about the packaging motor of Pseudomonas-phages that have increasing biomedical relevance. Here, we investigated the small terminase subunit from three Podoviridae phages that infect Pseudomonas aeruginosa. We found TerS is polymorphic in solution but assembles into a nonamer in its high-affinity heparin-binding conformation. The atomic structure of Pseudomonas phage PaP3 TerS, the first complete structure for a TerS from a cos phage, reveals nine helix-turn-helix (HTH) motifs asymmetrically arranged around a beta-stranded channel, too narrow to accommodate DNA. PaP3 TerS binds DNA in a sequence-specific manner in vitro. X-ray scattering and molecular modeling suggest TerS adopts an open conformation in solution, characterized by dynamic HTHs that move around an oligomerization core, generating discrete binding crevices for DNA. We propose a model for sequence-specific recognition of packaging initiation sites by lateral interdigitation of DNA.
Biophysical analysis of Pseudomonas-phage PaP3 small terminase suggests a mechanism for sequence-specific DNA-binding by lateral interdigitation.,Niazi M, Florio TJ, Yang R, Lokareddy RK, Swanson NA, Gillilan RE, Cingolani G Nucleic Acids Res. 2020 Oct 30. pii: 5943822. doi: 10.1093/nar/gkaa866. PMID:33125059[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Niazi M, Florio TJ, Yang R, Lokareddy RK, Swanson NA, Gillilan RE, Cingolani G. Biophysical analysis of Pseudomonas-phage PaP3 small terminase suggests a mechanism for sequence-specific DNA-binding by lateral interdigitation. Nucleic Acids Res. 2020 Oct 30. pii: 5943822. doi: 10.1093/nar/gkaa866. PMID:33125059 doi:http://dx.doi.org/10.1093/nar/gkaa866
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