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Volumn 120, Issue 19, 1998, Pages 4570-4581

Calculated and experimental low-energy conformations of cyclic urea HIV protease inhibitors

Author keywords

[No Author keywords available]

Indexed keywords

PROTEINASE INHIBITOR; UREA DERIVATIVE;

EID: 0032550655     PISSN: 00027863     EISSN: None     Source Type: Journal    
DOI: 10.1021/ja972357h     Document Type: Article
Times cited : (45)

References (104)
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    • Rational Design of HIV Protease Inhibitors
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    • note
    • A fundamental assumption in implicit in this approach: structures that can obtain the binding geometry only at the expense of significant internal strain energy are not of primary interest as targets. Several arguments can be made to counter this assumption: (a) there are unpublished indications that many ligands in the Brookhaven Protein Data Bank appear to retain significant internal strain energy on binding; (b) the possibility that the net effect of binding to the receptor may be to stabilize ligand conformations that are less favorable in the unbound state; and (c) a preorganized ligand may not have a kinetic pathway to bind to its target. However, in the prospective design process, in which many good ideas must be prioritized into a few synthetic targets, it is a reasonable starting point to expect an energetic advantage for a ligand whose low energy conformation in the ambient milieu (in our case, aqueous pH 5.5 buffer) is very close to its optimal bound conformation in the target receptor.
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    • During preparation of this manuscript Hulten et al. reported on the behavior of DMP323 and some other P1/P1′ cyclic urea and cyclic sulfonamide analogues in molecular dynamics simulations in water and in the presence of HIV protease. A full conformational search was not undertaken nor are free ligand geometries analyzed experimentally, which is the focus of our research. The results do show weak correlation of calculated and experimental affinities to HIV-1 protease using the GROMOS force field. Hulten, J.; Bonham, N. M.; Nillroth, U.; Hansson, T.; Zuccarello, G.; Bouzide, A.; Aaqvist, J.; Classon, B.; Danielson, H.; Karlen, A.; Kvarnstrom, I.; Samuelsson, B.; Hallberg, A. J. Med. Chem. 1997, 40, 0(6), 885-897.
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* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.