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6jip

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Current revision (10:38, 27 March 2024) (edit) (undo)
 
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<StructureSection load='6jip' size='340' side='right'caption='[[6jip]], [[Resolution|resolution]] 1.66&Aring;' scene=''>
<StructureSection load='6jip' size='340' side='right'caption='[[6jip]], [[Resolution|resolution]] 1.66&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[6jip]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Strr6 Strr6]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JIP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6JIP FirstGlance]. <br>
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<table><tr><td colspan='2'>[[6jip]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptococcus_pneumoniae_R6 Streptococcus pneumoniae R6] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JIP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6JIP FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene></td></tr>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.659&#8491;</td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">spr0690, sp_0782 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=171101 STRR6])</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene></td></tr>
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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=6jip FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jip OCA], [http://pdbe.org/6jip PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6jip RCSB], [http://www.ebi.ac.uk/pdbsum/6jip PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6jip ProSAT]</span></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=6jip FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jip OCA], [https://pdbe.org/6jip PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6jip RCSB], [https://www.ebi.ac.uk/pdbsum/6jip PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6jip ProSAT]</span></td></tr>
</table>
</table>
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<div style="background-color:#fffaf0;">
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== Function ==
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== Publication Abstract from PubMed ==
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[https://www.uniprot.org/uniprot/Q8DQG2_STRR6 Q8DQG2_STRR6]
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SP_0782 from Streptococcus pneumoniae is a dimeric protein that potentially binds with single-stranded DNA (ssDNA) in a manner similar to human PC4, the prototype of PC4-like proteins, which plays roles in transcription and maintenance of genome stability. In a previous NMR study, SP_0782 exhibited an ssDNA-binding property different from YdbC, a prokaryotic PC4-like protein from Lactococcus lactis, but the underlying mechanism remains unclear. Here, we show that although SP_0782 adopts an overall fold similar to those of PC4 and YdbC, the ssDNA length occupied by SP_0782 is shorter than those occupied by PC4 and YdbC. SP_0782 exhibits varied binding patterns for different lengths of ssDNA, and tends to form large complexes with ssDNA in a potential high-density binding manner. The structures of SP_0782 complexed with different ssDNAs reveal that the varied binding patterns are associated with distinct capture of nucleotides in two major DNA-binding regions of SP_0782. Moreover, a comparison of known structures of PC4-like proteins complexed with ssDNA reveals a divergence in the binding interface between prokaryotic and eukaryotic PC4-like proteins. This study provides insights into the ssDNA-binding mechanism of PC4-like proteins, and benefits further study regarding the biological function of SP_0782, probably in DNA protection and natural transformation.
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Structural insight into the length-dependent binding of ssDNA by SP_0782 from Streptococcus pneumoniae, reveals a divergence in the DNA-binding interface of PC4-like proteins.,Li S, Lu G, Fang X, Ramelot TA, Kennedy MA, Zhou X, Gong P, Zhang X, Liu M, Zhu J, Yang Y Nucleic Acids Res. 2019 Nov 12. pii: 5622711. doi: 10.1093/nar/gkz1045. PMID:31713614<ref>PMID:31713614</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 6jip" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Large Structures]]
[[Category: Large Structures]]
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[[Category: Strr6]]
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[[Category: Streptococcus pneumoniae R6]]
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[[Category: Fang, X]]
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[[Category: Synthetic construct]]
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[[Category: Gong, P]]
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[[Category: Fang X]]
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[[Category: Li, S]]
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[[Category: Gong P]]
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[[Category: Lu, G]]
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[[Category: Li S]]
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[[Category: Yang, Y]]
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[[Category: Lu G]]
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[[Category: Zhu, J]]
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[[Category: Yang Y]]
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[[Category: Dna binding protein-dna complex]]
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[[Category: Zhu J]]
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[[Category: Protein-dna complex]]
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Current revision

Crystal structure of Streptococcus pneumoniae SP_0782 (residues 7-79) in complex with single-stranded DNA dT6

PDB ID 6jip

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