Use of quantitative 1H NMR chemical shift changes for ligand docking into barnase
1 H NMR complexation-induced changes in chemical shift (CIS) of HN protons have been used to characterize the complexes of barnase with the deoxyoligonucleotides d(GC) and d(CGAC). Quantitative shift changes are used not only to locate the most probable binding site (using ring-current shifts), but...
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| Veröffentlicht in: | Journal of biomolecular NMR 2009, Vol.43 (1), p.11-19 |
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| creator | Cioffi, Marina Hunter, Christopher A. Packer, Martin J. Pandya, Maya J. Williamson, Mike P. |
| description | 1
H NMR complexation-induced changes in chemical shift (CIS) of HN protons have been used to characterize the complexes of barnase with the deoxyoligonucleotides d(GC) and d(CGAC). Quantitative shift changes are used not only to locate the most probable binding site (using ring-current shifts), but also to determine the orientation of the ligand within the binding site, based on a more complete shift calculation including bond magnetic anisotropies and electric field effects. For both ligands, the guanine is in the same binding site cleft, in the same position as identified in the crystal structure of the d(CGAC) complex. By contrast, a previous X-ray crystal structure of the d(GC) complex showed the ligand in the mouth of the active site, rather than at the guanyl-specific site, implying that the location may be an artifact of the crystallisation process. |
| doi_str_mv | 10.1007/s10858-008-9286-7 |
| format | Article |
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H NMR complexation-induced changes in chemical shift (CIS) of HN protons have been used to characterize the complexes of barnase with the deoxyoligonucleotides d(GC) and d(CGAC). Quantitative shift changes are used not only to locate the most probable binding site (using ring-current shifts), but also to determine the orientation of the ligand within the binding site, based on a more complete shift calculation including bond magnetic anisotropies and electric field effects. For both ligands, the guanine is in the same binding site cleft, in the same position as identified in the crystal structure of the d(CGAC) complex. By contrast, a previous X-ray crystal structure of the d(GC) complex showed the ligand in the mouth of the active site, rather than at the guanyl-specific site, implying that the location may be an artifact of the crystallisation process.</description><identifier>ISSN: 0925-2738</identifier><identifier>EISSN: 1573-5001</identifier><identifier>DOI: 10.1007/s10858-008-9286-7</identifier><language>eng</language><publisher>Dordrecht: Springer Netherlands</publisher><subject>Anisotropy ; Binding sites ; Biochemistry ; Biological and Medical Physics ; Biophysics ; Crystal structure ; Physics ; Physics and Astronomy ; Spectroscopy/Spectrometry</subject><ispartof>Journal of biomolecular NMR, 2009, Vol.43 (1), p.11-19</ispartof><rights>Springer Science+Business Media B.V. 2008</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c1937-cb886bd55c83e25c71784b9a115abf7fc39f85f98f90a19c102f1cf48baef8193</citedby><cites>FETCH-LOGICAL-c1937-cb886bd55c83e25c71784b9a115abf7fc39f85f98f90a19c102f1cf48baef8193</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s10858-008-9286-7$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s10858-008-9286-7$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,778,782,27907,27908,41471,42540,51302</link.rule.ids></links><search><creatorcontrib>Cioffi, Marina</creatorcontrib><creatorcontrib>Hunter, Christopher A.</creatorcontrib><creatorcontrib>Packer, Martin J.</creatorcontrib><creatorcontrib>Pandya, Maya J.</creatorcontrib><creatorcontrib>Williamson, Mike P.</creatorcontrib><title>Use of quantitative 1H NMR chemical shift changes for ligand docking into barnase</title><title>Journal of biomolecular NMR</title><addtitle>J Biomol NMR</addtitle><description>1
H NMR complexation-induced changes in chemical shift (CIS) of HN protons have been used to characterize the complexes of barnase with the deoxyoligonucleotides d(GC) and d(CGAC). Quantitative shift changes are used not only to locate the most probable binding site (using ring-current shifts), but also to determine the orientation of the ligand within the binding site, based on a more complete shift calculation including bond magnetic anisotropies and electric field effects. For both ligands, the guanine is in the same binding site cleft, in the same position as identified in the crystal structure of the d(CGAC) complex. 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H NMR complexation-induced changes in chemical shift (CIS) of HN protons have been used to characterize the complexes of barnase with the deoxyoligonucleotides d(GC) and d(CGAC). Quantitative shift changes are used not only to locate the most probable binding site (using ring-current shifts), but also to determine the orientation of the ligand within the binding site, based on a more complete shift calculation including bond magnetic anisotropies and electric field effects. For both ligands, the guanine is in the same binding site cleft, in the same position as identified in the crystal structure of the d(CGAC) complex. By contrast, a previous X-ray crystal structure of the d(GC) complex showed the ligand in the mouth of the active site, rather than at the guanyl-specific site, implying that the location may be an artifact of the crystallisation process.</abstract><cop>Dordrecht</cop><pub>Springer Netherlands</pub><doi>10.1007/s10858-008-9286-7</doi><tpages>9</tpages></addata></record> |
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| subjects | Anisotropy Binding sites Biochemistry Biological and Medical Physics Biophysics Crystal structure Physics Physics and Astronomy Spectroscopy/Spectrometry |
| title | Use of quantitative 1H NMR chemical shift changes for ligand docking into barnase |
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