6kbs

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(New page: '''Unreleased structure''' The entry 6kbs is ON HOLD Authors: Wang, N., Bao, H., Huang, H. Description: Crystal structure of yedK in complex with ssDNA [[Category: Unreleased Structure...)
Current revision (10:29, 22 November 2023) (edit) (undo)
 
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'''Unreleased structure'''
 
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The entry 6kbs is ON HOLD
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==Crystal structure of yedK in complex with ssDNA==
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<StructureSection load='6kbs' size='340' side='right'caption='[[6kbs]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[6kbs]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6KBS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6KBS FirstGlance]. <br>
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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]] 1.601&#8491;</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=6kbs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6kbs OCA], [https://pdbe.org/6kbs PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6kbs RCSB], [https://www.ebi.ac.uk/pdbsum/6kbs PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6kbs ProSAT]</span></td></tr>
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</table>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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HMCES and yedK were recently identified as sensors of abasic sites in ssDNA. In this study, we present multiple crystal structures captured in the apo-, nonspecific-substrate-binding, specific-substrate-binding, and product-binding states of yedK. In combination with biochemical data, we unveil the molecular basis of AP site sensing in ssDNA by yedK. Our results indicate that yedK has a strong preference for AP site-containing ssDNA over native ssDNA and that the conserved Glu105 residue is important for identifying AP sites in ssDNA. Moreover, our results reveal that a thiazolidine linkage is formed between yedK and AP sites in ssDNA, with the residues that stabilize the thiazolidine linkage important for the formation of DNA-protein crosslinks between yedK and the AP sites. We propose that our findings offer a unique platform to develop yedK and other SRAP domain-containing proteins as tools for detecting abasic sites in vitro and in vivo.
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Authors: Wang, N., Bao, H., Huang, H.
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Molecular basis of abasic site sensing in single-stranded DNA by the SRAP domain of E. coli yedK.,Wang N, Bao H, Chen L, Liu Y, Li Y, Wu B, Huang H Nucleic Acids Res. 2019 Nov 4;47(19):10388-10399. doi: 10.1093/nar/gkz744. PMID:31504793<ref>PMID:31504793</ref>
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Description: Crystal structure of yedK in complex with ssDNA
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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[[Category: Unreleased Structures]]
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</div>
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[[Category: Bao, H]]
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<div class="pdbe-citations 6kbs" style="background-color:#fffaf0;"></div>
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[[Category: Huang, H]]
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== References ==
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[[Category: Wang, N]]
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Escherichia coli]]
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[[Category: Large Structures]]
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[[Category: Bao H]]
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[[Category: Huang H]]
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[[Category: Wang N]]

Current revision

Crystal structure of yedK in complex with ssDNA

PDB ID 6kbs

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