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Volumn 126, Issue 31, 2004, Pages 9695-9708

Antibody-catalyzed oxy-cope rearrangement: Mechanism and origins of catalysis and stereoselectivity from DFT quantum mechanics and flexible docking

Author keywords

[No Author keywords available]

Indexed keywords

CATALYSIS; GASES; HYDROGEN BONDS; ISOTOPES; PHASE TRANSITIONS; PROBABILITY DENSITY FUNCTION; REACTION KINETICS;

EID: 3543139585     PISSN: 00027863     EISSN: None     Source Type: Journal    
DOI: 10.1021/ja048604g     Document Type: Article
Times cited : (13)

References (90)
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    • Pericyclic reaction transitition states: Passions and punctilios, 1935-1995
    • For an account of mechanistic controversies, see: (b) Houk, K. N.; Gonzalez, J.; Li, Y. Pericyclic Reaction Transitition States: Passions and Punctilios, 1935-1995. Acc. Chem. Res. 1995, 28, 81-90.
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    • Houk, K.N.1    Gonzalez, J.2    Li, Y.3
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    • Spartan 5.1.3 (Unix): Wavefunction, Inc., 18401 Von Karman Ave., Suite 370, Irvine, CA 92715
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    • Data for the germline structure were taken from the revised data file for 1DoV.pdb dated 04/10/2000
    • Data for the germline structure were taken from the revised data file for 1DoV.pdb dated 04/10/2000.
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    • note
    • (b) The Cope rearrangement for 2,5-dicyano-1,5-hexadiene is degenerate and, therefore, the intermediate is flanked by two transition states which are related by symmetry; these are identical in structure and energy and correspond to a transition state into and a transition state out of the diradical intermediate.
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    • note
    • H50, with a distance between them of 1.63 A°.
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    • note
    • For clarification, 200 docking runs were carried out on each antibody-ligand pair, with each run generating a final, lowest energy configuration. Of those 200 runs, those which generated an essentially identical binding mode and geometry were clustered as an ensemble of like structures, and the number of structures in the cluster along with the mean docking energy is reported.
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    • note
    • Autodock provides an estimate of the free energy of binding, which is based on the mean docking energy we report but also includes corrections based on the conformational degrees of freedom in the ligand. We report the mean docking energy, which takes into account all ligand-protein interactions (van der Waals, electrostatic), because of complications from our placing additional conformational restrictions on the transition-state models.


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.